2648 lines (2647 with data), 295.9 kB
{
"cells": [
{
"cell_type": "markdown",
"metadata": {},
"source": [
"# SUB-BENCHMARK3: Comparing jDR methods on single-cell datasets\n",
"\n",
"The performances of the 9 jDR methods are here compared based on their ability to cluster cells based on their cancer cell line of origine. The clustering is performed jointly considering scRNA-seq and scATAC-seq data. "
]
},
{
"cell_type": "markdown",
"metadata": {},
"source": [
"## Data preprocessing\n",
"First the data are read in their original format and adapted to be read as input of our run_factorization function."
]
},
{
"cell_type": "code",
"execution_count": 2,
"metadata": {},
"outputs": [],
"source": [
"# Load data and processing\n",
"\n",
"# Load RNA-seq data\n",
"exp <- readRDS(\"../data/single-cell/CellLines_RNAseqCounts.RDS\", refhook = NULL) #ENS for genes and counts\n",
"# Apply log2 on RNA-seq data\n",
"exp <- log2(exp+1)\n",
"# Load ATAC-seq data\n",
"atac_counts<-readRDS(\"../data/single-cell/CellLines_ATACseqCounts.RDS\", refhook = NULL) # peaks counts\n",
"# Load metadata\n",
"metadata<-readRDS(\"../data/single-cell/CellLines_metadata.RDS\", refhook = NULL)\n",
"# Rename columns from metadata\n",
"colnames(atac_counts) <- metadata[,1]\n",
"\n",
"# Export RNA-seq data as tab-separated table\n",
"write.table(exp, \"../data/single-cell/CellLines_RNAseqCounts.txt\", \n",
" sep=\"\\t\", col.names=TRUE, row.names=TRUE)\n",
"# Add a name (\"probe\") to the first column\n",
"system(\"sed -i '1s/^/probe\\t/' ../data/single-cell/CellLines_RNAseqCounts.txt\")\n",
"# Export ATAC-seq data as tab-separated table\n",
"write.table(atac_counts, \"../data/single-cell/CellLines_ATACseqCounts.txt\", \n",
" sep=\"\\t\", col.names=TRUE, row.names=TRUE)\n",
"# Add a name (\"probe\") to the first column\n",
"system(\"sed -i '1s/^/probe\\t/' ../data/single-cell/CellLines_ATACseqCounts.txt\")"
]
},
{
"cell_type": "code",
"execution_count": 5,
"metadata": {},
"outputs": [
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"</tbody>\n",
"</table>\n"
],
"text/latex": [
"A data.frame: 49073 × 206\n",
"\\begin{tabular}{r|lllllllllllllllllllll}\n",
" & HCT\\_CL100049490\\_L01\\_10 & HCT\\_CL100049490\\_L01\\_14 & HCT\\_CL100049490\\_L01\\_15 & HCT\\_CL100049490\\_L01\\_16 & HCT\\_CL100049490\\_L01\\_19 & HCT\\_CL100049490\\_L01\\_2 & HCT\\_CL100049490\\_L01\\_21 & HCT\\_CL100049490\\_L01\\_22 & HCT\\_CL100049490\\_L01\\_24 & HCT\\_CL100049490\\_L01\\_27 & ⋯ & K562\\_CL100050926\\_L02\\_79 & K562\\_CL100050926\\_L02\\_81 & K562\\_CL100050926\\_L02\\_83 & K562\\_CL100050926\\_L02\\_84 & K562\\_CL100050926\\_L02\\_85 & K562\\_CL100050926\\_L02\\_86 & K562\\_CL100050926\\_L02\\_87 & K562\\_CL100050926\\_L02\\_88 & K562\\_CL100050926\\_L02\\_92 & K562\\_CL100050926\\_L02\\_93\\\\\n",
" & <dbl> & <dbl> & <dbl> & <dbl> & <dbl> & <dbl> & <dbl> & <dbl> & <dbl> & <dbl> & ⋯ & <dbl> & <dbl> & <dbl> & <dbl> & <dbl> & <dbl> & <dbl> & <dbl> & <dbl> & <dbl>\\\\\n",
"\\hline\n",
"\tENSG00000000003 & 4.754888 & 6.918863 & 5.807355 & 6.906891 & 6.599913 & 7.266787 & 6.857981 & 7.087463 & 7.179909 & 6.629357 & ⋯ & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000\\\\\n",
"\tENSG00000000005 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & ⋯ & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000\\\\\n",
"\tENSG00000000419 & 6.129283 & 6.409391 & 6.339850 & 6.409391 & 6.426265 & 6.169925 & 6.108524 & 6.614710 & 6.357552 & 6.189825 & ⋯ & 4.754888 & 4.807355 & 6.285402 & 5.044394 & 5.643856 & 5.857981 & 5.906891 & 6.129283 & 5.954196 & 6.409391\\\\\n",
"\tENSG00000000457 & 6.584963 & 5.954196 & 7.209453 & 1.000000 & 5.209453 & 5.700440 & 7.209453 & 7.055282 & 2.321928 & 4.000000 & ⋯ & 6.539159 & 5.087463 & 0.000000 & 5.906891 & 3.906891 & 0.000000 & 6.000000 & 6.741467 & 3.906891 & 1.000000\\\\\n",
"\tENSG00000000460 & 5.807355 & 6.087463 & 7.679480 & 1.000000 & 6.988685 & 7.294621 & 7.276124 & 6.988685 & 1.000000 & 6.339850 & ⋯ & 5.700440 & 3.169925 & 0.000000 & 4.000000 & 6.599913 & 1.000000 & 4.392317 & 6.942515 & 5.459432 & 4.247928\\\\\n",
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"\tENSG00000001036 & 7.044394 & 7.159871 & 7.129283 & 6.954196 & 6.988685 & 7.442943 & 7.011227 & 7.199672 & 6.954196 & 6.658211 & ⋯ & 6.392317 & 6.426265 & 6.942515 & 5.357552 & 6.781360 & 6.426265 & 7.044394 & 7.055282 & 7.276124 & 7.139551\\\\\n",
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"\tENSG00000001461 & 0.000000 & 1.584963 & 7.266787 & 1.000000 & 6.000000 & 6.643856 & 0.000000 & 5.727920 & 2.321928 & 0.000000 & ⋯ & 6.375039 & 0.000000 & 0.000000 & 2.000000 & 4.700440 & 5.781360 & 0.000000 & 1.000000 & 6.820179 & 5.459432\\\\\n",
"\tENSG00000001497 & 7.219169 & 7.768184 & 7.787903 & 7.643856 & 7.546894 & 5.285402 & 8.118941 & 7.622052 & 7.906891 & 7.741467 & ⋯ & 0.000000 & 5.584963 & 6.357552 & 6.392317 & 6.442943 & 5.857981 & 3.700440 & 0.000000 & 6.357552 & 5.459432\\\\\n",
"\tENSG00000001561 & 6.643856 & 3.169925 & 7.276124 & 1.000000 & 6.507795 & 1.584963 & 0.000000 & 5.044394 & 7.592457 & 0.000000 & ⋯ & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000\\\\\n",
"\tENSG00000001617 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & ⋯ & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000\\\\\n",
"\tENSG00000001626 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 1.584963 & ⋯ & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000\\\\\n",
"\tENSG00000001629 & 6.491853 & 5.392317 & 6.686501 & 6.686501 & 2.807355 & 2.321928 & 0.000000 & 6.894818 & 1.000000 & 4.523562 & ⋯ & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 6.643856 & 0.000000 & 0.000000\\\\\n",
"\tENSG00000001630 & 4.700440 & 4.169925 & 5.000000 & 4.857981 & 4.807355 & 4.392317 & 5.169925 & 4.754888 & 5.209453 & 4.459432 & ⋯ & 2.584963 & 2.584963 & 2.807355 & 3.584963 & 3.700440 & 2.000000 & 3.906891 & 5.000000 & 3.459432 & 4.523562\\\\\n",
"\tENSG00000001631 & 7.392317 & 0.000000 & 4.247928 & 0.000000 & 7.209453 & 7.409391 & 6.189825 & 5.523562 & 6.409391 & 5.129283 & ⋯ & 6.392317 & 4.807355 & 5.584963 & 4.954196 & 4.087463 & 6.066089 & 5.426265 & 6.129283 & 4.643856 & 0.000000\\\\\n",
"\tENSG00000002016 & 6.569856 & 0.000000 & 6.209453 & 0.000000 & 1.584963 & 6.554589 & 6.918863 & 6.870365 & 7.238405 & 6.599913 & ⋯ & 4.643856 & 0.000000 & 3.321928 & 0.000000 & 0.000000 & 4.000000 & 0.000000 & 0.000000 & 0.000000 & 1.584963\\\\\n",
"\tENSG00000002079 & 6.339850 & 0.000000 & 0.000000 & 0.000000 & 1.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 6.754888 & ⋯ & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000\\\\\n",
"\tENSG00000002330 & 5.754888 & 6.629357 & 6.247928 & 6.491853 & 6.189825 & 6.409391 & 6.409391 & 5.672425 & 5.700440 & 6.442943 & ⋯ & 4.584963 & 4.459432 & 1.000000 & 3.700440 & 5.044394 & 1.000000 & 5.209453 & 2.321928 & 5.129283 & 0.000000\\\\\n",
"\tENSG00000002549 & 7.257388 & 7.483816 & 7.238405 & 7.118941 & 7.149747 & 7.467606 & 7.238405 & 7.366322 & 7.087463 & 7.199672 & ⋯ & 6.781360 & 7.000000 & 7.022368 & 5.247928 & 4.754888 & 7.330917 & 7.169925 & 6.894818 & 6.700440 & 5.554589\\\\\n",
"\tENSG00000002586 & 1.000000 & 0.000000 & 1.000000 & 1.584963 & 0.000000 & 1.000000 & 1.000000 & 1.000000 & 1.000000 & 1.000000 & ⋯ & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000\\\\\n",
"\tENSG00000002587 & 7.199672 & 7.577429 & 7.357552 & 7.426265 & 7.066089 & 7.994353 & 7.366322 & 7.539159 & 7.383704 & 7.066089 & ⋯ & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000\\\\\n",
"\tENSG00000002726 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & ⋯ & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000\\\\\n",
"\tENSG00000002745 & 3.459432 & 7.787903 & 7.257388 & 7.845490 & 6.768184 & 5.392317 & 5.044394 & 7.554589 & 3.000000 & 6.768184 & ⋯ & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000\\\\\n",
"\tENSG00000002746 & 0.000000 & 0.000000 & 7.055282 & 2.000000 & 2.000000 & 0.000000 & 0.000000 & 3.169925 & 3.906891 & 0.000000 & ⋯ & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000\\\\\n",
"\tENSG00000002822 & 7.977280 & 7.247928 & 7.076816 & 6.629357 & 5.754888 & 3.459432 & 7.977280 & 7.076816 & 7.149747 & 0.000000 & ⋯ & 2.584963 & 6.022368 & 3.807355 & 6.129283 & 1.000000 & 7.294621 & 6.321928 & 5.491853 & 7.392317 & 5.087463\\\\\n",
"\tENSG00000002834 & 8.000000 & 7.768184 & 8.092757 & 8.257388 & 8.108524 & 8.154818 & 7.971544 & 8.124121 & 7.876517 & 8.124121 & ⋯ & 6.426265 & 5.954196 & 6.845490 & 6.247928 & 6.357552 & 5.169925 & 7.108524 & 6.768184 & 5.700440 & 6.965784\\\\\n",
"\t⋮ & ⋮ & ⋮ & ⋮ & ⋮ & ⋮ & ⋮ & ⋮ & ⋮ & ⋮ & ⋮ & ⋱ & ⋮ & ⋮ & ⋮ & ⋮ & ⋮ & ⋮ & ⋮ & ⋮ & ⋮ & ⋮\\\\\n",
"\tENSGR0000167393 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & ⋯ & 0.000000 & 0.000000 & 0.000000 & 0.00000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000\\\\\n",
"\tENSGR0000169084 & 0.000000 & 1.000000 & 1.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 1.000000 & 1.000000 & 0.000000 & ⋯ & 1.584963 & 1.000000 & 0.000000 & 0.00000 & 0.000000 & 0.000000 & 0.000000 & 1.000000 & 0.000000 & 0.000000\\\\\n",
"\tENSGR0000169093 & 3.584963 & 5.000000 & 3.321928 & 3.700440 & 2.584963 & 3.169925 & 3.807355 & 3.807355 & 3.700440 & 3.584963 & ⋯ & 2.321928 & 1.584963 & 0.000000 & 0.00000 & 1.000000 & 0.000000 & 2.000000 & 0.000000 & 0.000000 & 0.000000\\\\\n",
"\tENSGR0000169100 & 2.807355 & 4.000000 & 4.247928 & 3.321928 & 3.700440 & 4.906891 & 4.523562 & 3.459432 & 4.857981 & 4.523562 & ⋯ & 3.000000 & 3.906891 & 3.459432 & 3.70044 & 3.321928 & 2.321928 & 3.807355 & 2.807355 & 4.584963 & 2.807355\\\\\n",
"\tENSGR0000178605 & 0.000000 & 1.584963 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & ⋯ & 0.000000 & 0.000000 & 0.000000 & 0.00000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000\\\\\n",
"\tENSGR0000182162 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & ⋯ & 0.000000 & 0.000000 & 0.000000 & 0.00000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000\\\\\n",
"\tENSGR0000182378 & 2.321928 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 1.000000 & 1.000000 & 0.000000 & 2.000000 & ⋯ & 2.321928 & 3.000000 & 0.000000 & 0.00000 & 1.584963 & 0.000000 & 2.807355 & 3.169925 & 2.000000 & 1.584963\\\\\n",
"\tENSGR0000182484 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & ⋯ & 0.000000 & 0.000000 & 0.000000 & 0.00000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000\\\\\n",
"\tENSGR0000185203 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & ⋯ & 0.000000 & 0.000000 & 0.000000 & 1.00000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000\\\\\n",
"\tENSGR0000185291 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & ⋯ & 0.000000 & 0.000000 & 0.000000 & 0.00000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000\\\\\n",
"\tENSGR0000185960 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & ⋯ & 0.000000 & 0.000000 & 0.000000 & 0.00000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000\\\\\n",
"\tENSGR0000196433 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & ⋯ & 0.000000 & 0.000000 & 0.000000 & 0.00000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000\\\\\n",
"\tENSGR0000197976 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & ⋯ & 0.000000 & 0.000000 & 0.000000 & 0.00000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 1.000000 & 0.000000\\\\\n",
"\tENSGR0000198223 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 1.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & ⋯ & 0.000000 & 0.000000 & 0.000000 & 0.00000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000\\\\\n",
"\tENSGR0000205755 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & ⋯ & 0.000000 & 0.000000 & 0.000000 & 0.00000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000\\\\\n",
"\tENSGR0000214717 & 1.000000 & 1.584963 & 3.000000 & 0.000000 & 0.000000 & 1.000000 & 0.000000 & 1.000000 & 1.584963 & 2.000000 & ⋯ & 0.000000 & 0.000000 & 1.000000 & 1.00000 & 0.000000 & 0.000000 & 1.000000 & 1.584963 & 2.000000 & 0.000000\\\\\n",
"\tENSGR0000223511 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & ⋯ & 0.000000 & 0.000000 & 0.000000 & 0.00000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000\\\\\n",
"\tENSGR0000223571 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & ⋯ & 0.000000 & 0.000000 & 0.000000 & 0.00000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000\\\\\n",
"\tENSGR0000223773 & 1.000000 & 0.000000 & 2.321928 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 1.000000 & 1.584963 & 0.000000 & ⋯ & 0.000000 & 0.000000 & 0.000000 & 0.00000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000\\\\\n",
"\tENSGR0000225661 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & ⋯ & 0.000000 & 0.000000 & 0.000000 & 0.00000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000\\\\\n",
"\tENSGR0000226179 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & ⋯ & 0.000000 & 0.000000 & 0.000000 & 0.00000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000\\\\\n",
"\tENSGR0000229232 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & ⋯ & 0.000000 & 0.000000 & 0.000000 & 0.00000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000\\\\\n",
"\tENSGR0000230542 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & ⋯ & 0.000000 & 0.000000 & 0.000000 & 0.00000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000\\\\\n",
"\tENSGR0000234958 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & ⋯ & 0.000000 & 0.000000 & 0.000000 & 0.00000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000\\\\\n",
"\tENSGR0000236017 & 3.169925 & 2.584963 & 0.000000 & 0.000000 & 0.000000 & 1.000000 & 0.000000 & 0.000000 & 1.000000 & 0.000000 & ⋯ & 0.000000 & 0.000000 & 0.000000 & 0.00000 & 0.000000 & 0.000000 & 2.321928 & 0.000000 & 0.000000 & 0.000000\\\\\n",
"\tENSGR0000236871 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & ⋯ & 0.000000 & 0.000000 & 0.000000 & 0.00000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000\\\\\n",
"\tENSGR0000237531 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & ⋯ & 0.000000 & 0.000000 & 0.000000 & 0.00000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000\\\\\n",
"\tENSGR0000237801 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & ⋯ & 0.000000 & 0.000000 & 0.000000 & 0.00000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000\\\\\n",
"\tENSGR0000265350 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & ⋯ & 0.000000 & 0.000000 & 0.000000 & 0.00000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000\\\\\n",
"\tENSGR0000266731 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & ⋯ & 0.000000 & 0.000000 & 0.000000 & 0.00000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000 & 0.000000\\\\\n",
"\\end{tabular}\n"
],
"text/markdown": [
"\n",
"A data.frame: 49073 × 206\n",
"\n",
"| <!--/--> | HCT_CL100049490_L01_10 <dbl> | HCT_CL100049490_L01_14 <dbl> | HCT_CL100049490_L01_15 <dbl> | HCT_CL100049490_L01_16 <dbl> | HCT_CL100049490_L01_19 <dbl> | HCT_CL100049490_L01_2 <dbl> | HCT_CL100049490_L01_21 <dbl> | HCT_CL100049490_L01_22 <dbl> | HCT_CL100049490_L01_24 <dbl> | HCT_CL100049490_L01_27 <dbl> | ⋯ ⋯ | K562_CL100050926_L02_79 <dbl> | K562_CL100050926_L02_81 <dbl> | K562_CL100050926_L02_83 <dbl> | K562_CL100050926_L02_84 <dbl> | K562_CL100050926_L02_85 <dbl> | K562_CL100050926_L02_86 <dbl> | K562_CL100050926_L02_87 <dbl> | K562_CL100050926_L02_88 <dbl> | K562_CL100050926_L02_92 <dbl> | K562_CL100050926_L02_93 <dbl> |\n",
"|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|\n",
"| ENSG00000000003 | 4.754888 | 6.918863 | 5.807355 | 6.906891 | 6.599913 | 7.266787 | 6.857981 | 7.087463 | 7.179909 | 6.629357 | ⋯ | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 |\n",
"| ENSG00000000005 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | ⋯ | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 |\n",
"| ENSG00000000419 | 6.129283 | 6.409391 | 6.339850 | 6.409391 | 6.426265 | 6.169925 | 6.108524 | 6.614710 | 6.357552 | 6.189825 | ⋯ | 4.754888 | 4.807355 | 6.285402 | 5.044394 | 5.643856 | 5.857981 | 5.906891 | 6.129283 | 5.954196 | 6.409391 |\n",
"| ENSG00000000457 | 6.584963 | 5.954196 | 7.209453 | 1.000000 | 5.209453 | 5.700440 | 7.209453 | 7.055282 | 2.321928 | 4.000000 | ⋯ | 6.539159 | 5.087463 | 0.000000 | 5.906891 | 3.906891 | 0.000000 | 6.000000 | 6.741467 | 3.906891 | 1.000000 |\n",
"| ENSG00000000460 | 5.807355 | 6.087463 | 7.679480 | 1.000000 | 6.988685 | 7.294621 | 7.276124 | 6.988685 | 1.000000 | 6.339850 | ⋯ | 5.700440 | 3.169925 | 0.000000 | 4.000000 | 6.599913 | 1.000000 | 4.392317 | 6.942515 | 5.459432 | 4.247928 |\n",
"| ENSG00000000938 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | ⋯ | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 |\n",
"| ENSG00000000971 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | ⋯ | 6.781360 | 6.285402 | 8.243174 | 8.134426 | 7.857981 | 7.507795 | 8.169925 | 7.794416 | 8.189825 | 8.169925 |\n",
"| ENSG00000001036 | 7.044394 | 7.159871 | 7.129283 | 6.954196 | 6.988685 | 7.442943 | 7.011227 | 7.199672 | 6.954196 | 6.658211 | ⋯ | 6.392317 | 6.426265 | 6.942515 | 5.357552 | 6.781360 | 6.426265 | 7.044394 | 7.055282 | 7.276124 | 7.139551 |\n",
"| ENSG00000001084 | 0.000000 | 3.584963 | 7.629357 | 1.000000 | 0.000000 | 6.741467 | 3.459432 | 6.129283 | 7.312883 | 0.000000 | ⋯ | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 3.584963 | 0.000000 | 0.000000 | 4.906891 | 0.000000 |\n",
"| ENSG00000001167 | 6.523562 | 5.247928 | 7.912889 | 0.000000 | 7.426265 | 0.000000 | 1.584963 | 6.189825 | 7.491853 | 7.643856 | ⋯ | 1.584963 | 0.000000 | 0.000000 | 5.169925 | 3.700440 | 6.475733 | 7.087463 | 0.000000 | 0.000000 | 0.000000 |\n",
"| ENSG00000001460 | 3.000000 | 0.000000 | 5.930737 | 4.169925 | 5.643856 | 3.169925 | 6.523562 | 4.459432 | 7.219169 | 0.000000 | ⋯ | 3.321928 | 3.321928 | 0.000000 | 0.000000 | 3.700440 | 4.169925 | 2.000000 | 6.108524 | 0.000000 | 6.303781 |\n",
"| ENSG00000001461 | 0.000000 | 1.584963 | 7.266787 | 1.000000 | 6.000000 | 6.643856 | 0.000000 | 5.727920 | 2.321928 | 0.000000 | ⋯ | 6.375039 | 0.000000 | 0.000000 | 2.000000 | 4.700440 | 5.781360 | 0.000000 | 1.000000 | 6.820179 | 5.459432 |\n",
"| ENSG00000001497 | 7.219169 | 7.768184 | 7.787903 | 7.643856 | 7.546894 | 5.285402 | 8.118941 | 7.622052 | 7.906891 | 7.741467 | ⋯ | 0.000000 | 5.584963 | 6.357552 | 6.392317 | 6.442943 | 5.857981 | 3.700440 | 0.000000 | 6.357552 | 5.459432 |\n",
"| ENSG00000001561 | 6.643856 | 3.169925 | 7.276124 | 1.000000 | 6.507795 | 1.584963 | 0.000000 | 5.044394 | 7.592457 | 0.000000 | ⋯ | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 |\n",
"| ENSG00000001617 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | ⋯ | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 |\n",
"| ENSG00000001626 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 1.584963 | ⋯ | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 |\n",
"| ENSG00000001629 | 6.491853 | 5.392317 | 6.686501 | 6.686501 | 2.807355 | 2.321928 | 0.000000 | 6.894818 | 1.000000 | 4.523562 | ⋯ | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 6.643856 | 0.000000 | 0.000000 |\n",
"| ENSG00000001630 | 4.700440 | 4.169925 | 5.000000 | 4.857981 | 4.807355 | 4.392317 | 5.169925 | 4.754888 | 5.209453 | 4.459432 | ⋯ | 2.584963 | 2.584963 | 2.807355 | 3.584963 | 3.700440 | 2.000000 | 3.906891 | 5.000000 | 3.459432 | 4.523562 |\n",
"| ENSG00000001631 | 7.392317 | 0.000000 | 4.247928 | 0.000000 | 7.209453 | 7.409391 | 6.189825 | 5.523562 | 6.409391 | 5.129283 | ⋯ | 6.392317 | 4.807355 | 5.584963 | 4.954196 | 4.087463 | 6.066089 | 5.426265 | 6.129283 | 4.643856 | 0.000000 |\n",
"| ENSG00000002016 | 6.569856 | 0.000000 | 6.209453 | 0.000000 | 1.584963 | 6.554589 | 6.918863 | 6.870365 | 7.238405 | 6.599913 | ⋯ | 4.643856 | 0.000000 | 3.321928 | 0.000000 | 0.000000 | 4.000000 | 0.000000 | 0.000000 | 0.000000 | 1.584963 |\n",
"| ENSG00000002079 | 6.339850 | 0.000000 | 0.000000 | 0.000000 | 1.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 6.754888 | ⋯ | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 |\n",
"| ENSG00000002330 | 5.754888 | 6.629357 | 6.247928 | 6.491853 | 6.189825 | 6.409391 | 6.409391 | 5.672425 | 5.700440 | 6.442943 | ⋯ | 4.584963 | 4.459432 | 1.000000 | 3.700440 | 5.044394 | 1.000000 | 5.209453 | 2.321928 | 5.129283 | 0.000000 |\n",
"| ENSG00000002549 | 7.257388 | 7.483816 | 7.238405 | 7.118941 | 7.149747 | 7.467606 | 7.238405 | 7.366322 | 7.087463 | 7.199672 | ⋯ | 6.781360 | 7.000000 | 7.022368 | 5.247928 | 4.754888 | 7.330917 | 7.169925 | 6.894818 | 6.700440 | 5.554589 |\n",
"| ENSG00000002586 | 1.000000 | 0.000000 | 1.000000 | 1.584963 | 0.000000 | 1.000000 | 1.000000 | 1.000000 | 1.000000 | 1.000000 | ⋯ | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 |\n",
"| ENSG00000002587 | 7.199672 | 7.577429 | 7.357552 | 7.426265 | 7.066089 | 7.994353 | 7.366322 | 7.539159 | 7.383704 | 7.066089 | ⋯ | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 |\n",
"| ENSG00000002726 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | ⋯ | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 |\n",
"| ENSG00000002745 | 3.459432 | 7.787903 | 7.257388 | 7.845490 | 6.768184 | 5.392317 | 5.044394 | 7.554589 | 3.000000 | 6.768184 | ⋯ | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 |\n",
"| ENSG00000002746 | 0.000000 | 0.000000 | 7.055282 | 2.000000 | 2.000000 | 0.000000 | 0.000000 | 3.169925 | 3.906891 | 0.000000 | ⋯ | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 |\n",
"| ENSG00000002822 | 7.977280 | 7.247928 | 7.076816 | 6.629357 | 5.754888 | 3.459432 | 7.977280 | 7.076816 | 7.149747 | 0.000000 | ⋯ | 2.584963 | 6.022368 | 3.807355 | 6.129283 | 1.000000 | 7.294621 | 6.321928 | 5.491853 | 7.392317 | 5.087463 |\n",
"| ENSG00000002834 | 8.000000 | 7.768184 | 8.092757 | 8.257388 | 8.108524 | 8.154818 | 7.971544 | 8.124121 | 7.876517 | 8.124121 | ⋯ | 6.426265 | 5.954196 | 6.845490 | 6.247928 | 6.357552 | 5.169925 | 7.108524 | 6.768184 | 5.700440 | 6.965784 |\n",
"| ⋮ | ⋮ | ⋮ | ⋮ | ⋮ | ⋮ | ⋮ | ⋮ | ⋮ | ⋮ | ⋮ | ⋱ | ⋮ | ⋮ | ⋮ | ⋮ | ⋮ | ⋮ | ⋮ | ⋮ | ⋮ | ⋮ |\n",
"| ENSGR0000167393 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | ⋯ | 0.000000 | 0.000000 | 0.000000 | 0.00000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 |\n",
"| ENSGR0000169084 | 0.000000 | 1.000000 | 1.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 1.000000 | 1.000000 | 0.000000 | ⋯ | 1.584963 | 1.000000 | 0.000000 | 0.00000 | 0.000000 | 0.000000 | 0.000000 | 1.000000 | 0.000000 | 0.000000 |\n",
"| ENSGR0000169093 | 3.584963 | 5.000000 | 3.321928 | 3.700440 | 2.584963 | 3.169925 | 3.807355 | 3.807355 | 3.700440 | 3.584963 | ⋯ | 2.321928 | 1.584963 | 0.000000 | 0.00000 | 1.000000 | 0.000000 | 2.000000 | 0.000000 | 0.000000 | 0.000000 |\n",
"| ENSGR0000169100 | 2.807355 | 4.000000 | 4.247928 | 3.321928 | 3.700440 | 4.906891 | 4.523562 | 3.459432 | 4.857981 | 4.523562 | ⋯ | 3.000000 | 3.906891 | 3.459432 | 3.70044 | 3.321928 | 2.321928 | 3.807355 | 2.807355 | 4.584963 | 2.807355 |\n",
"| ENSGR0000178605 | 0.000000 | 1.584963 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | ⋯ | 0.000000 | 0.000000 | 0.000000 | 0.00000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 |\n",
"| ENSGR0000182162 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | ⋯ | 0.000000 | 0.000000 | 0.000000 | 0.00000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 |\n",
"| ENSGR0000182378 | 2.321928 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 1.000000 | 1.000000 | 0.000000 | 2.000000 | ⋯ | 2.321928 | 3.000000 | 0.000000 | 0.00000 | 1.584963 | 0.000000 | 2.807355 | 3.169925 | 2.000000 | 1.584963 |\n",
"| ENSGR0000182484 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | ⋯ | 0.000000 | 0.000000 | 0.000000 | 0.00000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 |\n",
"| ENSGR0000185203 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | ⋯ | 0.000000 | 0.000000 | 0.000000 | 1.00000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 |\n",
"| ENSGR0000185291 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | ⋯ | 0.000000 | 0.000000 | 0.000000 | 0.00000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 |\n",
"| ENSGR0000185960 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | ⋯ | 0.000000 | 0.000000 | 0.000000 | 0.00000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 |\n",
"| ENSGR0000196433 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | ⋯ | 0.000000 | 0.000000 | 0.000000 | 0.00000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 |\n",
"| ENSGR0000197976 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | ⋯ | 0.000000 | 0.000000 | 0.000000 | 0.00000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 1.000000 | 0.000000 |\n",
"| ENSGR0000198223 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 1.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | ⋯ | 0.000000 | 0.000000 | 0.000000 | 0.00000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 |\n",
"| ENSGR0000205755 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | ⋯ | 0.000000 | 0.000000 | 0.000000 | 0.00000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 |\n",
"| ENSGR0000214717 | 1.000000 | 1.584963 | 3.000000 | 0.000000 | 0.000000 | 1.000000 | 0.000000 | 1.000000 | 1.584963 | 2.000000 | ⋯ | 0.000000 | 0.000000 | 1.000000 | 1.00000 | 0.000000 | 0.000000 | 1.000000 | 1.584963 | 2.000000 | 0.000000 |\n",
"| ENSGR0000223511 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | ⋯ | 0.000000 | 0.000000 | 0.000000 | 0.00000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 |\n",
"| ENSGR0000223571 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | ⋯ | 0.000000 | 0.000000 | 0.000000 | 0.00000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 |\n",
"| ENSGR0000223773 | 1.000000 | 0.000000 | 2.321928 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 1.000000 | 1.584963 | 0.000000 | ⋯ | 0.000000 | 0.000000 | 0.000000 | 0.00000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 |\n",
"| ENSGR0000225661 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | ⋯ | 0.000000 | 0.000000 | 0.000000 | 0.00000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 |\n",
"| ENSGR0000226179 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | ⋯ | 0.000000 | 0.000000 | 0.000000 | 0.00000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 |\n",
"| ENSGR0000229232 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | ⋯ | 0.000000 | 0.000000 | 0.000000 | 0.00000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 |\n",
"| ENSGR0000230542 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | ⋯ | 0.000000 | 0.000000 | 0.000000 | 0.00000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 |\n",
"| ENSGR0000234958 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | ⋯ | 0.000000 | 0.000000 | 0.000000 | 0.00000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 |\n",
"| ENSGR0000236017 | 3.169925 | 2.584963 | 0.000000 | 0.000000 | 0.000000 | 1.000000 | 0.000000 | 0.000000 | 1.000000 | 0.000000 | ⋯ | 0.000000 | 0.000000 | 0.000000 | 0.00000 | 0.000000 | 0.000000 | 2.321928 | 0.000000 | 0.000000 | 0.000000 |\n",
"| ENSGR0000236871 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | ⋯ | 0.000000 | 0.000000 | 0.000000 | 0.00000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 |\n",
"| ENSGR0000237531 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | ⋯ | 0.000000 | 0.000000 | 0.000000 | 0.00000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 |\n",
"| ENSGR0000237801 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | ⋯ | 0.000000 | 0.000000 | 0.000000 | 0.00000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 |\n",
"| ENSGR0000265350 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | ⋯ | 0.000000 | 0.000000 | 0.000000 | 0.00000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 |\n",
"| ENSGR0000266731 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | ⋯ | 0.000000 | 0.000000 | 0.000000 | 0.00000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 | 0.000000 |\n",
"\n"
],
"text/plain": [
" HCT_CL100049490_L01_10 HCT_CL100049490_L01_14\n",
"ENSG00000000003 4.754888 6.918863 \n",
"ENSG00000000005 0.000000 0.000000 \n",
"ENSG00000000419 6.129283 6.409391 \n",
"ENSG00000000457 6.584963 5.954196 \n",
"ENSG00000000460 5.807355 6.087463 \n",
"ENSG00000000938 0.000000 0.000000 \n",
"ENSG00000000971 0.000000 0.000000 \n",
"ENSG00000001036 7.044394 7.159871 \n",
"ENSG00000001084 0.000000 3.584963 \n",
"ENSG00000001167 6.523562 5.247928 \n",
"ENSG00000001460 3.000000 0.000000 \n",
"ENSG00000001461 0.000000 1.584963 \n",
"ENSG00000001497 7.219169 7.768184 \n",
"ENSG00000001561 6.643856 3.169925 \n",
"ENSG00000001617 0.000000 0.000000 \n",
"ENSG00000001626 0.000000 0.000000 \n",
"ENSG00000001629 6.491853 5.392317 \n",
"ENSG00000001630 4.700440 4.169925 \n",
"ENSG00000001631 7.392317 0.000000 \n",
"ENSG00000002016 6.569856 0.000000 \n",
"ENSG00000002079 6.339850 0.000000 \n",
"ENSG00000002330 5.754888 6.629357 \n",
"ENSG00000002549 7.257388 7.483816 \n",
"ENSG00000002586 1.000000 0.000000 \n",
"ENSG00000002587 7.199672 7.577429 \n",
"ENSG00000002726 0.000000 0.000000 \n",
"ENSG00000002745 3.459432 7.787903 \n",
"ENSG00000002746 0.000000 0.000000 \n",
"ENSG00000002822 7.977280 7.247928 \n",
"ENSG00000002834 8.000000 7.768184 \n",
"⋮ ⋮ ⋮ \n",
"ENSGR0000167393 0.000000 0.000000 \n",
"ENSGR0000169084 0.000000 1.000000 \n",
"ENSGR0000169093 3.584963 5.000000 \n",
"ENSGR0000169100 2.807355 4.000000 \n",
"ENSGR0000178605 0.000000 1.584963 \n",
"ENSGR0000182162 0.000000 0.000000 \n",
"ENSGR0000182378 2.321928 0.000000 \n",
"ENSGR0000182484 0.000000 0.000000 \n",
"ENSGR0000185203 0.000000 0.000000 \n",
"ENSGR0000185291 0.000000 0.000000 \n",
"ENSGR0000185960 0.000000 0.000000 \n",
"ENSGR0000196433 0.000000 0.000000 \n",
"ENSGR0000197976 0.000000 0.000000 \n",
"ENSGR0000198223 0.000000 0.000000 \n",
"ENSGR0000205755 0.000000 0.000000 \n",
"ENSGR0000214717 1.000000 1.584963 \n",
"ENSGR0000223511 0.000000 0.000000 \n",
"ENSGR0000223571 0.000000 0.000000 \n",
"ENSGR0000223773 1.000000 0.000000 \n",
"ENSGR0000225661 0.000000 0.000000 \n",
"ENSGR0000226179 0.000000 0.000000 \n",
"ENSGR0000229232 0.000000 0.000000 \n",
"ENSGR0000230542 0.000000 0.000000 \n",
"ENSGR0000234958 0.000000 0.000000 \n",
"ENSGR0000236017 3.169925 2.584963 \n",
"ENSGR0000236871 0.000000 0.000000 \n",
"ENSGR0000237531 0.000000 0.000000 \n",
"ENSGR0000237801 0.000000 0.000000 \n",
"ENSGR0000265350 0.000000 0.000000 \n",
"ENSGR0000266731 0.000000 0.000000 \n",
" HCT_CL100049490_L01_15 HCT_CL100049490_L01_16\n",
"ENSG00000000003 5.807355 6.906891 \n",
"ENSG00000000005 0.000000 0.000000 \n",
"ENSG00000000419 6.339850 6.409391 \n",
"ENSG00000000457 7.209453 1.000000 \n",
"ENSG00000000460 7.679480 1.000000 \n",
"ENSG00000000938 0.000000 0.000000 \n",
"ENSG00000000971 0.000000 0.000000 \n",
"ENSG00000001036 7.129283 6.954196 \n",
"ENSG00000001084 7.629357 1.000000 \n",
"ENSG00000001167 7.912889 0.000000 \n",
"ENSG00000001460 5.930737 4.169925 \n",
"ENSG00000001461 7.266787 1.000000 \n",
"ENSG00000001497 7.787903 7.643856 \n",
"ENSG00000001561 7.276124 1.000000 \n",
"ENSG00000001617 0.000000 0.000000 \n",
"ENSG00000001626 0.000000 0.000000 \n",
"ENSG00000001629 6.686501 6.686501 \n",
"ENSG00000001630 5.000000 4.857981 \n",
"ENSG00000001631 4.247928 0.000000 \n",
"ENSG00000002016 6.209453 0.000000 \n",
"ENSG00000002079 0.000000 0.000000 \n",
"ENSG00000002330 6.247928 6.491853 \n",
"ENSG00000002549 7.238405 7.118941 \n",
"ENSG00000002586 1.000000 1.584963 \n",
"ENSG00000002587 7.357552 7.426265 \n",
"ENSG00000002726 0.000000 0.000000 \n",
"ENSG00000002745 7.257388 7.845490 \n",
"ENSG00000002746 7.055282 2.000000 \n",
"ENSG00000002822 7.076816 6.629357 \n",
"ENSG00000002834 8.092757 8.257388 \n",
"⋮ ⋮ ⋮ \n",
"ENSGR0000167393 0.000000 0.000000 \n",
"ENSGR0000169084 1.000000 0.000000 \n",
"ENSGR0000169093 3.321928 3.700440 \n",
"ENSGR0000169100 4.247928 3.321928 \n",
"ENSGR0000178605 0.000000 0.000000 \n",
"ENSGR0000182162 0.000000 0.000000 \n",
"ENSGR0000182378 0.000000 0.000000 \n",
"ENSGR0000182484 0.000000 0.000000 \n",
"ENSGR0000185203 0.000000 0.000000 \n",
"ENSGR0000185291 0.000000 0.000000 \n",
"ENSGR0000185960 0.000000 0.000000 \n",
"ENSGR0000196433 0.000000 0.000000 \n",
"ENSGR0000197976 0.000000 0.000000 \n",
"ENSGR0000198223 0.000000 0.000000 \n",
"ENSGR0000205755 0.000000 0.000000 \n",
"ENSGR0000214717 3.000000 0.000000 \n",
"ENSGR0000223511 0.000000 0.000000 \n",
"ENSGR0000223571 0.000000 0.000000 \n",
"ENSGR0000223773 2.321928 0.000000 \n",
"ENSGR0000225661 0.000000 0.000000 \n",
"ENSGR0000226179 0.000000 0.000000 \n",
"ENSGR0000229232 0.000000 0.000000 \n",
"ENSGR0000230542 0.000000 0.000000 \n",
"ENSGR0000234958 0.000000 0.000000 \n",
"ENSGR0000236017 0.000000 0.000000 \n",
"ENSGR0000236871 0.000000 0.000000 \n",
"ENSGR0000237531 0.000000 0.000000 \n",
"ENSGR0000237801 0.000000 0.000000 \n",
"ENSGR0000265350 0.000000 0.000000 \n",
"ENSGR0000266731 0.000000 0.000000 \n",
" HCT_CL100049490_L01_19 HCT_CL100049490_L01_2\n",
"ENSG00000000003 6.599913 7.266787 \n",
"ENSG00000000005 0.000000 0.000000 \n",
"ENSG00000000419 6.426265 6.169925 \n",
"ENSG00000000457 5.209453 5.700440 \n",
"ENSG00000000460 6.988685 7.294621 \n",
"ENSG00000000938 0.000000 0.000000 \n",
"ENSG00000000971 0.000000 0.000000 \n",
"ENSG00000001036 6.988685 7.442943 \n",
"ENSG00000001084 0.000000 6.741467 \n",
"ENSG00000001167 7.426265 0.000000 \n",
"ENSG00000001460 5.643856 3.169925 \n",
"ENSG00000001461 6.000000 6.643856 \n",
"ENSG00000001497 7.546894 5.285402 \n",
"ENSG00000001561 6.507795 1.584963 \n",
"ENSG00000001617 0.000000 0.000000 \n",
"ENSG00000001626 0.000000 0.000000 \n",
"ENSG00000001629 2.807355 2.321928 \n",
"ENSG00000001630 4.807355 4.392317 \n",
"ENSG00000001631 7.209453 7.409391 \n",
"ENSG00000002016 1.584963 6.554589 \n",
"ENSG00000002079 1.000000 0.000000 \n",
"ENSG00000002330 6.189825 6.409391 \n",
"ENSG00000002549 7.149747 7.467606 \n",
"ENSG00000002586 0.000000 1.000000 \n",
"ENSG00000002587 7.066089 7.994353 \n",
"ENSG00000002726 0.000000 0.000000 \n",
"ENSG00000002745 6.768184 5.392317 \n",
"ENSG00000002746 2.000000 0.000000 \n",
"ENSG00000002822 5.754888 3.459432 \n",
"ENSG00000002834 8.108524 8.154818 \n",
"⋮ ⋮ ⋮ \n",
"ENSGR0000167393 0.000000 0.000000 \n",
"ENSGR0000169084 0.000000 0.000000 \n",
"ENSGR0000169093 2.584963 3.169925 \n",
"ENSGR0000169100 3.700440 4.906891 \n",
"ENSGR0000178605 0.000000 0.000000 \n",
"ENSGR0000182162 0.000000 0.000000 \n",
"ENSGR0000182378 0.000000 0.000000 \n",
"ENSGR0000182484 0.000000 0.000000 \n",
"ENSGR0000185203 0.000000 0.000000 \n",
"ENSGR0000185291 0.000000 0.000000 \n",
"ENSGR0000185960 0.000000 0.000000 \n",
"ENSGR0000196433 0.000000 0.000000 \n",
"ENSGR0000197976 0.000000 0.000000 \n",
"ENSGR0000198223 1.000000 0.000000 \n",
"ENSGR0000205755 0.000000 0.000000 \n",
"ENSGR0000214717 0.000000 1.000000 \n",
"ENSGR0000223511 0.000000 0.000000 \n",
"ENSGR0000223571 0.000000 0.000000 \n",
"ENSGR0000223773 0.000000 0.000000 \n",
"ENSGR0000225661 0.000000 0.000000 \n",
"ENSGR0000226179 0.000000 0.000000 \n",
"ENSGR0000229232 0.000000 0.000000 \n",
"ENSGR0000230542 0.000000 0.000000 \n",
"ENSGR0000234958 0.000000 0.000000 \n",
"ENSGR0000236017 0.000000 1.000000 \n",
"ENSGR0000236871 0.000000 0.000000 \n",
"ENSGR0000237531 0.000000 0.000000 \n",
"ENSGR0000237801 0.000000 0.000000 \n",
"ENSGR0000265350 0.000000 0.000000 \n",
"ENSGR0000266731 0.000000 0.000000 \n",
" HCT_CL100049490_L01_21 HCT_CL100049490_L01_22\n",
"ENSG00000000003 6.857981 7.087463 \n",
"ENSG00000000005 0.000000 0.000000 \n",
"ENSG00000000419 6.108524 6.614710 \n",
"ENSG00000000457 7.209453 7.055282 \n",
"ENSG00000000460 7.276124 6.988685 \n",
"ENSG00000000938 0.000000 0.000000 \n",
"ENSG00000000971 0.000000 0.000000 \n",
"ENSG00000001036 7.011227 7.199672 \n",
"ENSG00000001084 3.459432 6.129283 \n",
"ENSG00000001167 1.584963 6.189825 \n",
"ENSG00000001460 6.523562 4.459432 \n",
"ENSG00000001461 0.000000 5.727920 \n",
"ENSG00000001497 8.118941 7.622052 \n",
"ENSG00000001561 0.000000 5.044394 \n",
"ENSG00000001617 0.000000 0.000000 \n",
"ENSG00000001626 0.000000 0.000000 \n",
"ENSG00000001629 0.000000 6.894818 \n",
"ENSG00000001630 5.169925 4.754888 \n",
"ENSG00000001631 6.189825 5.523562 \n",
"ENSG00000002016 6.918863 6.870365 \n",
"ENSG00000002079 0.000000 0.000000 \n",
"ENSG00000002330 6.409391 5.672425 \n",
"ENSG00000002549 7.238405 7.366322 \n",
"ENSG00000002586 1.000000 1.000000 \n",
"ENSG00000002587 7.366322 7.539159 \n",
"ENSG00000002726 0.000000 0.000000 \n",
"ENSG00000002745 5.044394 7.554589 \n",
"ENSG00000002746 0.000000 3.169925 \n",
"ENSG00000002822 7.977280 7.076816 \n",
"ENSG00000002834 7.971544 8.124121 \n",
"⋮ ⋮ ⋮ \n",
"ENSGR0000167393 0.000000 0.000000 \n",
"ENSGR0000169084 0.000000 1.000000 \n",
"ENSGR0000169093 3.807355 3.807355 \n",
"ENSGR0000169100 4.523562 3.459432 \n",
"ENSGR0000178605 0.000000 0.000000 \n",
"ENSGR0000182162 0.000000 0.000000 \n",
"ENSGR0000182378 1.000000 1.000000 \n",
"ENSGR0000182484 0.000000 0.000000 \n",
"ENSGR0000185203 0.000000 0.000000 \n",
"ENSGR0000185291 0.000000 0.000000 \n",
"ENSGR0000185960 0.000000 0.000000 \n",
"ENSGR0000196433 0.000000 0.000000 \n",
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" HCT_CL100049490_L01_24 HCT_CL100049490_L01_27 ⋯\n",
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"ENSG00000002079 0.000000 6.754888 ⋯\n",
"ENSG00000002330 5.700440 6.442943 ⋯\n",
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"⋮ ⋮ ⋮ ⋱\n",
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" K562_CL100050926_L02_79 K562_CL100050926_L02_81\n",
"ENSG00000000003 0.000000 0.000000 \n",
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"⋮ ⋮ ⋮ \n",
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" K562_CL100050926_L02_83 K562_CL100050926_L02_84\n",
"ENSG00000000003 0.000000 0.000000 \n",
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"ENSG00000001617 0.000000 0.000000 \n",
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"ENSG00000001630 2.807355 3.584963 \n",
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"⋮ ⋮ ⋮ \n",
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" K562_CL100050926_L02_85 K562_CL100050926_L02_86\n",
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"ENSG00000001084 0.000000 3.584963 \n",
"ENSG00000001167 3.700440 6.475733 \n",
"ENSG00000001460 3.700440 4.169925 \n",
"ENSG00000001461 4.700440 5.781360 \n",
"ENSG00000001497 6.442943 5.857981 \n",
"ENSG00000001561 0.000000 0.000000 \n",
"ENSG00000001617 0.000000 0.000000 \n",
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"⋮ ⋮ ⋮ \n",
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" K562_CL100050926_L02_87 K562_CL100050926_L02_88\n",
"ENSG00000000003 0.000000 0.000000 \n",
"ENSG00000000005 0.000000 0.000000 \n",
"ENSG00000000419 5.906891 6.129283 \n",
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"ENSG00000001084 0.000000 0.000000 \n",
"ENSG00000001167 7.087463 0.000000 \n",
"ENSG00000001460 2.000000 6.108524 \n",
"ENSG00000001461 0.000000 1.000000 \n",
"ENSG00000001497 3.700440 0.000000 \n",
"ENSG00000001561 0.000000 0.000000 \n",
"ENSG00000001617 0.000000 0.000000 \n",
"ENSG00000001626 0.000000 0.000000 \n",
"ENSG00000001629 0.000000 6.643856 \n",
"ENSG00000001630 3.906891 5.000000 \n",
"ENSG00000001631 5.426265 6.129283 \n",
"ENSG00000002016 0.000000 0.000000 \n",
"ENSG00000002079 0.000000 0.000000 \n",
"ENSG00000002330 5.209453 2.321928 \n",
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"ENSG00000002822 6.321928 5.491853 \n",
"ENSG00000002834 7.108524 6.768184 \n",
"⋮ ⋮ ⋮ \n",
"ENSGR0000167393 0.000000 0.000000 \n",
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"ENSGR0000169100 3.807355 2.807355 \n",
"ENSGR0000178605 0.000000 0.000000 \n",
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"ENSGR0000182378 2.807355 3.169925 \n",
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" K562_CL100050926_L02_92 K562_CL100050926_L02_93\n",
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"ENSG00000001561 0.000000 0.000000 \n",
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"ENSG00000002822 7.392317 5.087463 \n",
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"⋮ ⋮ ⋮ \n",
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"ENSGR0000169100 4.584963 2.807355 \n",
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]
},
"metadata": {},
"output_type": "display_data"
}
],
"source": [
"exp"
]
},
{
"cell_type": "code",
"execution_count": 6,
"metadata": {},
"outputs": [
{
"data": {
"text/html": [
"<table>\n",
"<caption>A data.frame: 207202 × 206</caption>\n",
"<thead>\n",
"\t<tr><th></th><th scope=col>HCT_CL100049490_L01_10</th><th scope=col>HCT_CL100049490_L01_14</th><th scope=col>HCT_CL100049490_L01_15</th><th scope=col>HCT_CL100049490_L01_16</th><th scope=col>HCT_CL100049490_L01_19</th><th scope=col>HCT_CL100049490_L01_2</th><th scope=col>HCT_CL100049490_L01_21</th><th scope=col>HCT_CL100049490_L01_22</th><th scope=col>HCT_CL100049490_L01_24</th><th scope=col>HCT_CL100049490_L01_27</th><th scope=col>⋯</th><th scope=col>K562_CL100050926_L02_79</th><th scope=col>K562_CL100050926_L02_81</th><th scope=col>K562_CL100050926_L02_83</th><th scope=col>K562_CL100050926_L02_84</th><th scope=col>K562_CL100050926_L02_85</th><th scope=col>K562_CL100050926_L02_86</th><th scope=col>K562_CL100050926_L02_87</th><th scope=col>K562_CL100050926_L02_88</th><th scope=col>K562_CL100050926_L02_92</th><th scope=col>K562_CL100050926_L02_93</th></tr>\n",
"\t<tr><th></th><th scope=col><int></th><th scope=col><int></th><th scope=col><int></th><th scope=col><int></th><th scope=col><int></th><th scope=col><int></th><th scope=col><int></th><th scope=col><int></th><th scope=col><int></th><th scope=col><int></th><th scope=col>⋯</th><th scope=col><int></th><th scope=col><int></th><th scope=col><int></th><th scope=col><int></th><th scope=col><int></th><th scope=col><int></th><th scope=col><int></th><th scope=col><int></th><th scope=col><int></th><th scope=col><int></th></tr>\n",
"</thead>\n",
"<tbody>\n",
"\t<tr><th scope=row>HCT116_peak_1</th><td>0</td><td>0</td><td>1</td><td>0</td><td>0</td><td> 1</td><td>0</td><td>0</td><td>0</td><td>0</td><td>⋯</td><td>3</td><td>1</td><td>1</td><td>2</td><td>1</td><td>0</td><td>1</td><td>2</td><td>0</td><td>0</td></tr>\n",
"\t<tr><th scope=row>Hela_peak_2</th><td>1</td><td>3</td><td>2</td><td>2</td><td>2</td><td> 8</td><td>4</td><td>1</td><td>1</td><td>0</td><td>⋯</td><td>0</td><td>4</td><td>2</td><td>1</td><td>0</td><td>2</td><td>1</td><td>0</td><td>0</td><td>0</td></tr>\n",
"\t<tr><th scope=row>K562_peak_2</th><td>1</td><td>0</td><td>0</td><td>0</td><td>0</td><td> 0</td><td>1</td><td>1</td><td>0</td><td>0</td><td>⋯</td><td>0</td><td>1</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td></tr>\n",
"\t<tr><th scope=row>HCT116_peak_3</th><td>0</td><td>5</td><td>0</td><td>0</td><td>4</td><td> 2</td><td>1</td><td>2</td><td>0</td><td>0</td><td>⋯</td><td>0</td><td>1</td><td>0</td><td>4</td><td>0</td><td>1</td><td>2</td><td>2</td><td>2</td><td>1</td></tr>\n",
"\t<tr><th scope=row>K562_peak_4</th><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td> 1</td><td>0</td><td>0</td><td>0</td><td>0</td><td>⋯</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>1</td><td>0</td><td>0</td><td>0</td><td>0</td></tr>\n",
"\t<tr><th scope=row>HCT116_peak_4</th><td>3</td><td>2</td><td>0</td><td>1</td><td>3</td><td> 3</td><td>1</td><td>0</td><td>3</td><td>2</td><td>⋯</td><td>0</td><td>1</td><td>3</td><td>1</td><td>2</td><td>1</td><td>0</td><td>1</td><td>1</td><td>2</td></tr>\n",
"\t<tr><th scope=row>Hela_peak_5</th><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td> 2</td><td>0</td><td>0</td><td>0</td><td>0</td><td>⋯</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>2</td><td>1</td><td>0</td><td>0</td></tr>\n",
"\t<tr><th scope=row>Hela_peak_6</th><td>0</td><td>0</td><td>0</td><td>0</td><td>2</td><td> 2</td><td>1</td><td>2</td><td>1</td><td>1</td><td>⋯</td><td>2</td><td>1</td><td>1</td><td>0</td><td>1</td><td>0</td><td>2</td><td>0</td><td>0</td><td>1</td></tr>\n",
"\t<tr><th scope=row>Hela_peak_7</th><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td> 0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>⋯</td><td>1</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td></tr>\n",
"\t<tr><th scope=row>HCT116_peak_6</th><td>0</td><td>1</td><td>0</td><td>0</td><td>2</td><td> 1</td><td>0</td><td>2</td><td>2</td><td>1</td><td>⋯</td><td>0</td><td>0</td><td>1</td><td>0</td><td>1</td><td>0</td><td>0</td><td>0</td><td>0</td><td>1</td></tr>\n",
"\t<tr><th scope=row>Hela_peak_9</th><td>0</td><td>0</td><td>0</td><td>1</td><td>1</td><td> 0</td><td>0</td><td>1</td><td>0</td><td>0</td><td>⋯</td><td>0</td><td>0</td><td>0</td><td>0</td><td>1</td><td>0</td><td>1</td><td>0</td><td>0</td><td>0</td></tr>\n",
"\t<tr><th scope=row>K562_peak_8</th><td>0</td><td>1</td><td>0</td><td>0</td><td>1</td><td> 0</td><td>0</td><td>1</td><td>0</td><td>0</td><td>⋯</td><td>0</td><td>0</td><td>2</td><td>0</td><td>2</td><td>2</td><td>0</td><td>2</td><td>1</td><td>0</td></tr>\n",
"\t<tr><th scope=row>HCT116_peak_8</th><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td> 0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>⋯</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>1</td><td>1</td><td>1</td><td>0</td><td>1</td></tr>\n",
"\t<tr><th scope=row>Hela_peak_10</th><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td> 0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>⋯</td><td>0</td><td>0</td><td>1</td><td>0</td><td>0</td><td>0</td><td>1</td><td>0</td><td>0</td><td>0</td></tr>\n",
"\t<tr><th scope=row>Hela_peak_11</th><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td> 0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>⋯</td><td>0</td><td>0</td><td>0</td><td>1</td><td>0</td><td>0</td><td>0</td><td>1</td><td>0</td><td>0</td></tr>\n",
"\t<tr><th scope=row>HCT116_peak_9</th><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td> 0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>⋯</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>1</td><td>0</td><td>0</td></tr>\n",
"\t<tr><th scope=row>Hela_peak_13</th><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td> 0</td><td>1</td><td>1</td><td>0</td><td>1</td><td>⋯</td><td>0</td><td>0</td><td>0</td><td>1</td><td>2</td><td>0</td><td>0</td><td>2</td><td>1</td><td>0</td></tr>\n",
"\t<tr><th scope=row>Hela_peak_14</th><td>0</td><td>0</td><td>0</td><td>2</td><td>2</td><td> 2</td><td>0</td><td>0</td><td>1</td><td>3</td><td>⋯</td><td>1</td><td>1</td><td>0</td><td>1</td><td>2</td><td>0</td><td>1</td><td>0</td><td>1</td><td>1</td></tr>\n",
"\t<tr><th scope=row>HCT116_peak_13</th><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td> 2</td><td>0</td><td>0</td><td>0</td><td>0</td><td>⋯</td><td>0</td><td>0</td><td>1</td><td>0</td><td>0</td><td>0</td><td>1</td><td>1</td><td>0</td><td>1</td></tr>\n",
"\t<tr><th scope=row>Hela_peak_15</th><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td> 0</td><td>1</td><td>1</td><td>0</td><td>1</td><td>⋯</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>1</td><td>1</td><td>1</td><td>0</td></tr>\n",
"\t<tr><th scope=row>Hela_peak_16b</th><td>1</td><td>1</td><td>0</td><td>0</td><td>4</td><td> 3</td><td>1</td><td>4</td><td>0</td><td>3</td><td>⋯</td><td>2</td><td>1</td><td>1</td><td>0</td><td>0</td><td>0</td><td>0</td><td>4</td><td>1</td><td>0</td></tr>\n",
"\t<tr><th scope=row>Hela_peak_16e</th><td>0</td><td>1</td><td>3</td><td>0</td><td>5</td><td>10</td><td>3</td><td>6</td><td>0</td><td>0</td><td>⋯</td><td>1</td><td>2</td><td>0</td><td>0</td><td>2</td><td>2</td><td>2</td><td>1</td><td>0</td><td>0</td></tr>\n",
"\t<tr><th scope=row>Hela_peak_16f</th><td>0</td><td>2</td><td>0</td><td>0</td><td>4</td><td> 5</td><td>1</td><td>1</td><td>0</td><td>0</td><td>⋯</td><td>0</td><td>0</td><td>0</td><td>0</td><td>1</td><td>0</td><td>2</td><td>1</td><td>2</td><td>0</td></tr>\n",
"\t<tr><th scope=row>K562_peak_11</th><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td> 1</td><td>0</td><td>2</td><td>0</td><td>0</td><td>⋯</td><td>0</td><td>1</td><td>1</td><td>0</td><td>1</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td></tr>\n",
"\t<tr><th scope=row>HCT116_peak_18</th><td>0</td><td>0</td><td>0</td><td>0</td><td>1</td><td> 1</td><td>0</td><td>5</td><td>0</td><td>1</td><td>⋯</td><td>1</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>1</td><td>1</td><td>0</td></tr>\n",
"\t<tr><th scope=row>HCT116_peak_19</th><td>0</td><td>0</td><td>0</td><td>1</td><td>0</td><td> 0</td><td>1</td><td>0</td><td>0</td><td>0</td><td>⋯</td><td>1</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>1</td><td>0</td><td>1</td><td>0</td></tr>\n",
"\t<tr><th scope=row>HCT116_peak_20</th><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td> 0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>⋯</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>1</td></tr>\n",
"\t<tr><th scope=row>Hela_peak_17</th><td>0</td><td>0</td><td>1</td><td>0</td><td>3</td><td> 1</td><td>0</td><td>1</td><td>0</td><td>0</td><td>⋯</td><td>2</td><td>0</td><td>2</td><td>0</td><td>0</td><td>2</td><td>1</td><td>2</td><td>0</td><td>1</td></tr>\n",
"\t<tr><th scope=row>K562_peak_13</th><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td> 0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>⋯</td><td>0</td><td>1</td><td>1</td><td>1</td><td>2</td><td>1</td><td>0</td><td>1</td><td>0</td><td>2</td></tr>\n",
"\t<tr><th scope=row>Hela_peak_19a</th><td>1</td><td>1</td><td>0</td><td>0</td><td>0</td><td> 1</td><td>0</td><td>2</td><td>0</td><td>0</td><td>⋯</td><td>3</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>1</td><td>1</td><td>2</td></tr>\n",
"\t<tr><th scope=row>⋮</th><td>⋮</td><td>⋮</td><td>⋮</td><td>⋮</td><td>⋮</td><td>⋮</td><td>⋮</td><td>⋮</td><td>⋮</td><td>⋮</td><td>⋱</td><td>⋮</td><td>⋮</td><td>⋮</td><td>⋮</td><td>⋮</td><td>⋮</td><td>⋮</td><td>⋮</td><td>⋮</td><td>⋮</td></tr>\n",
"\t<tr><th scope=row>HCT116_peak_94189</th><td>0</td><td>0</td><td>0</td><td>2</td><td>0</td><td>0</td><td>0</td><td>3</td><td>1</td><td>0</td><td>⋯</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>1</td><td>0</td><td>0</td></tr>\n",
"\t<tr><th scope=row>HCT116_peak_94190</th><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>⋯</td><td>0</td><td>0</td><td>0</td><td>0</td><td>1</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td></tr>\n",
"\t<tr><th scope=row>HCT116_peak_94191</th><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>1</td><td>1</td><td>2</td><td>0</td><td>⋯</td><td>0</td><td>0</td><td>0</td><td>0</td><td>1</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td></tr>\n",
"\t<tr><th scope=row>HCT116_peak_94192</th><td>0</td><td>0</td><td>0</td><td>0</td><td>1</td><td>0</td><td>0</td><td>1</td><td>0</td><td>0</td><td>⋯</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>1</td><td>0</td></tr>\n",
"\t<tr><th scope=row>HCT116_peak_94193</th><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>1</td><td>0</td><td>0</td><td>0</td><td>⋯</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>1</td><td>0</td><td>0</td></tr>\n",
"\t<tr><th scope=row>Hela_peak_138830</th><td>0</td><td>0</td><td>0</td><td>0</td><td>1</td><td>2</td><td>0</td><td>0</td><td>0</td><td>0</td><td>⋯</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>1</td><td>2</td><td>0</td><td>2</td></tr>\n",
"\t<tr><th scope=row>HCT116_peak_94194</th><td>0</td><td>0</td><td>1</td><td>0</td><td>0</td><td>1</td><td>0</td><td>0</td><td>0</td><td>0</td><td>⋯</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td></tr>\n",
"\t<tr><th scope=row>Hela_peak_138831</th><td>0</td><td>0</td><td>0</td><td>2</td><td>0</td><td>1</td><td>0</td><td>0</td><td>0</td><td>1</td><td>⋯</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>1</td><td>0</td><td>0</td><td>1</td><td>0</td></tr>\n",
"\t<tr><th scope=row>HCT116_peak_94195</th><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>⋯</td><td>0</td><td>0</td><td>2</td><td>0</td><td>0</td><td>0</td><td>2</td><td>0</td><td>0</td><td>0</td></tr>\n",
"\t<tr><th scope=row>Hela_peak_138832</th><td>0</td><td>0</td><td>0</td><td>0</td><td>2</td><td>3</td><td>0</td><td>1</td><td>1</td><td>0</td><td>⋯</td><td>1</td><td>1</td><td>0</td><td>0</td><td>1</td><td>0</td><td>2</td><td>2</td><td>1</td><td>1</td></tr>\n",
"\t<tr><th scope=row>K562_peak_58078</th><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>1</td><td>0</td><td>0</td><td>0</td><td>0</td><td>⋯</td><td>1</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>2</td><td>0</td><td>0</td><td>0</td></tr>\n",
"\t<tr><th scope=row>K562_peak_58079</th><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>1</td><td>0</td><td>3</td><td>0</td><td>0</td><td>⋯</td><td>0</td><td>1</td><td>0</td><td>0</td><td>0</td><td>0</td><td>1</td><td>1</td><td>0</td><td>0</td></tr>\n",
"\t<tr><th scope=row>Hela_peak_138833</th><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>3</td><td>1</td><td>0</td><td>⋯</td><td>1</td><td>3</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>1</td><td>1</td><td>0</td></tr>\n",
"\t<tr><th scope=row>HCT116_peak_94198</th><td>1</td><td>0</td><td>0</td><td>0</td><td>0</td><td>1</td><td>1</td><td>1</td><td>0</td><td>0</td><td>⋯</td><td>3</td><td>0</td><td>0</td><td>0</td><td>2</td><td>1</td><td>0</td><td>1</td><td>0</td><td>1</td></tr>\n",
"\t<tr><th scope=row>K562_peak_58080</th><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>1</td><td>1</td><td>0</td><td>0</td><td>⋯</td><td>3</td><td>0</td><td>0</td><td>0</td><td>2</td><td>0</td><td>0</td><td>0</td><td>0</td><td>1</td></tr>\n",
"\t<tr><th scope=row>Hela_peak_138835</th><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>⋯</td><td>1</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>1</td></tr>\n",
"\t<tr><th scope=row>HCT116_peak_94199</th><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>2</td><td>0</td><td>0</td><td>⋯</td><td>0</td><td>1</td><td>0</td><td>0</td><td>1</td><td>0</td><td>0</td><td>1</td><td>0</td><td>0</td></tr>\n",
"\t<tr><th scope=row>HCT116_peak_94200</th><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>⋯</td><td>1</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td></tr>\n",
"\t<tr><th scope=row>Hela_peak_138836</th><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>⋯</td><td>1</td><td>0</td><td>0</td><td>0</td><td>0</td><td>2</td><td>0</td><td>0</td><td>0</td><td>0</td></tr>\n",
"\t<tr><th scope=row>Hela_peak_138837</th><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>1</td><td>0</td><td>0</td><td>0</td><td>0</td><td>⋯</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>1</td></tr>\n",
"\t<tr><th scope=row>HCT116_peak_94201</th><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>1</td><td>0</td><td>0</td><td>0</td><td>0</td><td>⋯</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td></tr>\n",
"\t<tr><th scope=row>Hela_peak_138838</th><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>1</td><td>0</td><td>0</td><td>1</td><td>⋯</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td></tr>\n",
"\t<tr><th scope=row>Hela_peak_138839</th><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>1</td><td>0</td><td>3</td><td>0</td><td>0</td><td>⋯</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td></tr>\n",
"\t<tr><th scope=row>HCT116_peak_94203</th><td>3</td><td>0</td><td>0</td><td>0</td><td>2</td><td>2</td><td>2</td><td>3</td><td>1</td><td>0</td><td>⋯</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td></tr>\n",
"\t<tr><th scope=row>HCT116_peak_94204</th><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>⋯</td><td>0</td><td>0</td><td>0</td><td>1</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td></tr>\n",
"\t<tr><th scope=row>HCT116_peak_94205</th><td>0</td><td>0</td><td>1</td><td>1</td><td>0</td><td>2</td><td>0</td><td>1</td><td>2</td><td>1</td><td>⋯</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>1</td><td>1</td></tr>\n",
"\t<tr><th scope=row>Hela_peak_138842</th><td>0</td><td>0</td><td>1</td><td>0</td><td>0</td><td>1</td><td>0</td><td>0</td><td>0</td><td>0</td><td>⋯</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td></tr>\n",
"\t<tr><th scope=row>HCT116_peak_94206</th><td>1</td><td>0</td><td>0</td><td>0</td><td>0</td><td>1</td><td>0</td><td>0</td><td>0</td><td>0</td><td>⋯</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>2</td><td>0</td><td>0</td><td>0</td><td>0</td></tr>\n",
"\t<tr><th scope=row>Hela_peak_138843</th><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>2</td><td>1</td><td>0</td><td>0</td><td>0</td><td>⋯</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td></tr>\n",
"\t<tr><th scope=row>HCT116_peak_94207</th><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>⋯</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td></tr>\n",
"</tbody>\n",
"</table>\n"
],
"text/latex": [
"A data.frame: 207202 × 206\n",
"\\begin{tabular}{r|lllllllllllllllllllll}\n",
" & HCT\\_CL100049490\\_L01\\_10 & HCT\\_CL100049490\\_L01\\_14 & HCT\\_CL100049490\\_L01\\_15 & HCT\\_CL100049490\\_L01\\_16 & HCT\\_CL100049490\\_L01\\_19 & HCT\\_CL100049490\\_L01\\_2 & HCT\\_CL100049490\\_L01\\_21 & HCT\\_CL100049490\\_L01\\_22 & HCT\\_CL100049490\\_L01\\_24 & HCT\\_CL100049490\\_L01\\_27 & ⋯ & K562\\_CL100050926\\_L02\\_79 & K562\\_CL100050926\\_L02\\_81 & K562\\_CL100050926\\_L02\\_83 & K562\\_CL100050926\\_L02\\_84 & K562\\_CL100050926\\_L02\\_85 & K562\\_CL100050926\\_L02\\_86 & K562\\_CL100050926\\_L02\\_87 & K562\\_CL100050926\\_L02\\_88 & K562\\_CL100050926\\_L02\\_92 & K562\\_CL100050926\\_L02\\_93\\\\\n",
" & <int> & <int> & <int> & <int> & <int> & <int> & <int> & <int> & <int> & <int> & ⋯ & <int> & <int> & <int> & <int> & <int> & <int> & <int> & <int> & <int> & <int>\\\\\n",
"\\hline\n",
"\tHCT116\\_peak\\_1 & 0 & 0 & 1 & 0 & 0 & 1 & 0 & 0 & 0 & 0 & ⋯ & 3 & 1 & 1 & 2 & 1 & 0 & 1 & 2 & 0 & 0\\\\\n",
"\tHela\\_peak\\_2 & 1 & 3 & 2 & 2 & 2 & 8 & 4 & 1 & 1 & 0 & ⋯ & 0 & 4 & 2 & 1 & 0 & 2 & 1 & 0 & 0 & 0\\\\\n",
"\tK562\\_peak\\_2 & 1 & 0 & 0 & 0 & 0 & 0 & 1 & 1 & 0 & 0 & ⋯ & 0 & 1 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0\\\\\n",
"\tHCT116\\_peak\\_3 & 0 & 5 & 0 & 0 & 4 & 2 & 1 & 2 & 0 & 0 & ⋯ & 0 & 1 & 0 & 4 & 0 & 1 & 2 & 2 & 2 & 1\\\\\n",
"\tK562\\_peak\\_4 & 0 & 0 & 0 & 0 & 0 & 1 & 0 & 0 & 0 & 0 & ⋯ & 0 & 0 & 0 & 0 & 0 & 1 & 0 & 0 & 0 & 0\\\\\n",
"\tHCT116\\_peak\\_4 & 3 & 2 & 0 & 1 & 3 & 3 & 1 & 0 & 3 & 2 & ⋯ & 0 & 1 & 3 & 1 & 2 & 1 & 0 & 1 & 1 & 2\\\\\n",
"\tHela\\_peak\\_5 & 0 & 0 & 0 & 0 & 0 & 2 & 0 & 0 & 0 & 0 & ⋯ & 0 & 0 & 0 & 0 & 0 & 0 & 2 & 1 & 0 & 0\\\\\n",
"\tHela\\_peak\\_6 & 0 & 0 & 0 & 0 & 2 & 2 & 1 & 2 & 1 & 1 & ⋯ & 2 & 1 & 1 & 0 & 1 & 0 & 2 & 0 & 0 & 1\\\\\n",
"\tHela\\_peak\\_7 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & ⋯ & 1 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0\\\\\n",
"\tHCT116\\_peak\\_6 & 0 & 1 & 0 & 0 & 2 & 1 & 0 & 2 & 2 & 1 & ⋯ & 0 & 0 & 1 & 0 & 1 & 0 & 0 & 0 & 0 & 1\\\\\n",
"\tHela\\_peak\\_9 & 0 & 0 & 0 & 1 & 1 & 0 & 0 & 1 & 0 & 0 & ⋯ & 0 & 0 & 0 & 0 & 1 & 0 & 1 & 0 & 0 & 0\\\\\n",
"\tK562\\_peak\\_8 & 0 & 1 & 0 & 0 & 1 & 0 & 0 & 1 & 0 & 0 & ⋯ & 0 & 0 & 2 & 0 & 2 & 2 & 0 & 2 & 1 & 0\\\\\n",
"\tHCT116\\_peak\\_8 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & ⋯ & 0 & 0 & 0 & 0 & 0 & 1 & 1 & 1 & 0 & 1\\\\\n",
"\tHela\\_peak\\_10 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & ⋯ & 0 & 0 & 1 & 0 & 0 & 0 & 1 & 0 & 0 & 0\\\\\n",
"\tHela\\_peak\\_11 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & ⋯ & 0 & 0 & 0 & 1 & 0 & 0 & 0 & 1 & 0 & 0\\\\\n",
"\tHCT116\\_peak\\_9 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & ⋯ & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 1 & 0 & 0\\\\\n",
"\tHela\\_peak\\_13 & 0 & 0 & 0 & 0 & 0 & 0 & 1 & 1 & 0 & 1 & ⋯ & 0 & 0 & 0 & 1 & 2 & 0 & 0 & 2 & 1 & 0\\\\\n",
"\tHela\\_peak\\_14 & 0 & 0 & 0 & 2 & 2 & 2 & 0 & 0 & 1 & 3 & ⋯ & 1 & 1 & 0 & 1 & 2 & 0 & 1 & 0 & 1 & 1\\\\\n",
"\tHCT116\\_peak\\_13 & 0 & 0 & 0 & 0 & 0 & 2 & 0 & 0 & 0 & 0 & ⋯ & 0 & 0 & 1 & 0 & 0 & 0 & 1 & 1 & 0 & 1\\\\\n",
"\tHela\\_peak\\_15 & 0 & 0 & 0 & 0 & 0 & 0 & 1 & 1 & 0 & 1 & ⋯ & 0 & 0 & 0 & 0 & 0 & 0 & 1 & 1 & 1 & 0\\\\\n",
"\tHela\\_peak\\_16b & 1 & 1 & 0 & 0 & 4 & 3 & 1 & 4 & 0 & 3 & ⋯ & 2 & 1 & 1 & 0 & 0 & 0 & 0 & 4 & 1 & 0\\\\\n",
"\tHela\\_peak\\_16e & 0 & 1 & 3 & 0 & 5 & 10 & 3 & 6 & 0 & 0 & ⋯ & 1 & 2 & 0 & 0 & 2 & 2 & 2 & 1 & 0 & 0\\\\\n",
"\tHela\\_peak\\_16f & 0 & 2 & 0 & 0 & 4 & 5 & 1 & 1 & 0 & 0 & ⋯ & 0 & 0 & 0 & 0 & 1 & 0 & 2 & 1 & 2 & 0\\\\\n",
"\tK562\\_peak\\_11 & 0 & 0 & 0 & 0 & 0 & 1 & 0 & 2 & 0 & 0 & ⋯ & 0 & 1 & 1 & 0 & 1 & 0 & 0 & 0 & 0 & 0\\\\\n",
"\tHCT116\\_peak\\_18 & 0 & 0 & 0 & 0 & 1 & 1 & 0 & 5 & 0 & 1 & ⋯ & 1 & 0 & 0 & 0 & 0 & 0 & 0 & 1 & 1 & 0\\\\\n",
"\tHCT116\\_peak\\_19 & 0 & 0 & 0 & 1 & 0 & 0 & 1 & 0 & 0 & 0 & ⋯ & 1 & 0 & 0 & 0 & 0 & 0 & 1 & 0 & 1 & 0\\\\\n",
"\tHCT116\\_peak\\_20 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & ⋯ & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 1\\\\\n",
"\tHela\\_peak\\_17 & 0 & 0 & 1 & 0 & 3 & 1 & 0 & 1 & 0 & 0 & ⋯ & 2 & 0 & 2 & 0 & 0 & 2 & 1 & 2 & 0 & 1\\\\\n",
"\tK562\\_peak\\_13 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & ⋯ & 0 & 1 & 1 & 1 & 2 & 1 & 0 & 1 & 0 & 2\\\\\n",
"\tHela\\_peak\\_19a & 1 & 1 & 0 & 0 & 0 & 1 & 0 & 2 & 0 & 0 & ⋯ & 3 & 0 & 0 & 0 & 0 & 0 & 0 & 1 & 1 & 2\\\\\n",
"\t⋮ & ⋮ & ⋮ & ⋮ & ⋮ & ⋮ & ⋮ & ⋮ & ⋮ & ⋮ & ⋮ & ⋱ & ⋮ & ⋮ & ⋮ & ⋮ & ⋮ & ⋮ & ⋮ & ⋮ & ⋮ & ⋮\\\\\n",
"\tHCT116\\_peak\\_94189 & 0 & 0 & 0 & 2 & 0 & 0 & 0 & 3 & 1 & 0 & ⋯ & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 1 & 0 & 0\\\\\n",
"\tHCT116\\_peak\\_94190 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & ⋯ & 0 & 0 & 0 & 0 & 1 & 0 & 0 & 0 & 0 & 0\\\\\n",
"\tHCT116\\_peak\\_94191 & 0 & 0 & 0 & 0 & 0 & 0 & 1 & 1 & 2 & 0 & ⋯ & 0 & 0 & 0 & 0 & 1 & 0 & 0 & 0 & 0 & 0\\\\\n",
"\tHCT116\\_peak\\_94192 & 0 & 0 & 0 & 0 & 1 & 0 & 0 & 1 & 0 & 0 & ⋯ & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 1 & 0\\\\\n",
"\tHCT116\\_peak\\_94193 & 0 & 0 & 0 & 0 & 0 & 0 & 1 & 0 & 0 & 0 & ⋯ & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 1 & 0 & 0\\\\\n",
"\tHela\\_peak\\_138830 & 0 & 0 & 0 & 0 & 1 & 2 & 0 & 0 & 0 & 0 & ⋯ & 0 & 0 & 0 & 0 & 0 & 0 & 1 & 2 & 0 & 2\\\\\n",
"\tHCT116\\_peak\\_94194 & 0 & 0 & 1 & 0 & 0 & 1 & 0 & 0 & 0 & 0 & ⋯ & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0\\\\\n",
"\tHela\\_peak\\_138831 & 0 & 0 & 0 & 2 & 0 & 1 & 0 & 0 & 0 & 1 & ⋯ & 0 & 0 & 0 & 0 & 0 & 1 & 0 & 0 & 1 & 0\\\\\n",
"\tHCT116\\_peak\\_94195 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & ⋯ & 0 & 0 & 2 & 0 & 0 & 0 & 2 & 0 & 0 & 0\\\\\n",
"\tHela\\_peak\\_138832 & 0 & 0 & 0 & 0 & 2 & 3 & 0 & 1 & 1 & 0 & ⋯ & 1 & 1 & 0 & 0 & 1 & 0 & 2 & 2 & 1 & 1\\\\\n",
"\tK562\\_peak\\_58078 & 0 & 0 & 0 & 0 & 0 & 1 & 0 & 0 & 0 & 0 & ⋯ & 1 & 0 & 0 & 0 & 0 & 0 & 2 & 0 & 0 & 0\\\\\n",
"\tK562\\_peak\\_58079 & 0 & 0 & 0 & 0 & 0 & 1 & 0 & 3 & 0 & 0 & ⋯ & 0 & 1 & 0 & 0 & 0 & 0 & 1 & 1 & 0 & 0\\\\\n",
"\tHela\\_peak\\_138833 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 3 & 1 & 0 & ⋯ & 1 & 3 & 0 & 0 & 0 & 0 & 0 & 1 & 1 & 0\\\\\n",
"\tHCT116\\_peak\\_94198 & 1 & 0 & 0 & 0 & 0 & 1 & 1 & 1 & 0 & 0 & ⋯ & 3 & 0 & 0 & 0 & 2 & 1 & 0 & 1 & 0 & 1\\\\\n",
"\tK562\\_peak\\_58080 & 0 & 0 & 0 & 0 & 0 & 0 & 1 & 1 & 0 & 0 & ⋯ & 3 & 0 & 0 & 0 & 2 & 0 & 0 & 0 & 0 & 1\\\\\n",
"\tHela\\_peak\\_138835 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & ⋯ & 1 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 1\\\\\n",
"\tHCT116\\_peak\\_94199 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 2 & 0 & 0 & ⋯ & 0 & 1 & 0 & 0 & 1 & 0 & 0 & 1 & 0 & 0\\\\\n",
"\tHCT116\\_peak\\_94200 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & ⋯ & 1 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0\\\\\n",
"\tHela\\_peak\\_138836 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & ⋯ & 1 & 0 & 0 & 0 & 0 & 2 & 0 & 0 & 0 & 0\\\\\n",
"\tHela\\_peak\\_138837 & 0 & 0 & 0 & 0 & 0 & 1 & 0 & 0 & 0 & 0 & ⋯ & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 1\\\\\n",
"\tHCT116\\_peak\\_94201 & 0 & 0 & 0 & 0 & 0 & 1 & 0 & 0 & 0 & 0 & ⋯ & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0\\\\\n",
"\tHela\\_peak\\_138838 & 0 & 0 & 0 & 0 & 0 & 0 & 1 & 0 & 0 & 1 & ⋯ & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0\\\\\n",
"\tHela\\_peak\\_138839 & 0 & 0 & 0 & 0 & 0 & 1 & 0 & 3 & 0 & 0 & ⋯ & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0\\\\\n",
"\tHCT116\\_peak\\_94203 & 3 & 0 & 0 & 0 & 2 & 2 & 2 & 3 & 1 & 0 & ⋯ & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0\\\\\n",
"\tHCT116\\_peak\\_94204 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & ⋯ & 0 & 0 & 0 & 1 & 0 & 0 & 0 & 0 & 0 & 0\\\\\n",
"\tHCT116\\_peak\\_94205 & 0 & 0 & 1 & 1 & 0 & 2 & 0 & 1 & 2 & 1 & ⋯ & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 1 & 1\\\\\n",
"\tHela\\_peak\\_138842 & 0 & 0 & 1 & 0 & 0 & 1 & 0 & 0 & 0 & 0 & ⋯ & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0\\\\\n",
"\tHCT116\\_peak\\_94206 & 1 & 0 & 0 & 0 & 0 & 1 & 0 & 0 & 0 & 0 & ⋯ & 0 & 0 & 0 & 0 & 0 & 2 & 0 & 0 & 0 & 0\\\\\n",
"\tHela\\_peak\\_138843 & 0 & 0 & 0 & 0 & 0 & 2 & 1 & 0 & 0 & 0 & ⋯ & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0\\\\\n",
"\tHCT116\\_peak\\_94207 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & ⋯ & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0 & 0\\\\\n",
"\\end{tabular}\n"
],
"text/markdown": [
"\n",
"A data.frame: 207202 × 206\n",
"\n",
"| <!--/--> | HCT_CL100049490_L01_10 <int> | HCT_CL100049490_L01_14 <int> | HCT_CL100049490_L01_15 <int> | HCT_CL100049490_L01_16 <int> | HCT_CL100049490_L01_19 <int> | HCT_CL100049490_L01_2 <int> | HCT_CL100049490_L01_21 <int> | HCT_CL100049490_L01_22 <int> | HCT_CL100049490_L01_24 <int> | HCT_CL100049490_L01_27 <int> | ⋯ ⋯ | K562_CL100050926_L02_79 <int> | K562_CL100050926_L02_81 <int> | K562_CL100050926_L02_83 <int> | K562_CL100050926_L02_84 <int> | K562_CL100050926_L02_85 <int> | K562_CL100050926_L02_86 <int> | K562_CL100050926_L02_87 <int> | K562_CL100050926_L02_88 <int> | K562_CL100050926_L02_92 <int> | K562_CL100050926_L02_93 <int> |\n",
"|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|\n",
"| HCT116_peak_1 | 0 | 0 | 1 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | ⋯ | 3 | 1 | 1 | 2 | 1 | 0 | 1 | 2 | 0 | 0 |\n",
"| Hela_peak_2 | 1 | 3 | 2 | 2 | 2 | 8 | 4 | 1 | 1 | 0 | ⋯ | 0 | 4 | 2 | 1 | 0 | 2 | 1 | 0 | 0 | 0 |\n",
"| K562_peak_2 | 1 | 0 | 0 | 0 | 0 | 0 | 1 | 1 | 0 | 0 | ⋯ | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |\n",
"| HCT116_peak_3 | 0 | 5 | 0 | 0 | 4 | 2 | 1 | 2 | 0 | 0 | ⋯ | 0 | 1 | 0 | 4 | 0 | 1 | 2 | 2 | 2 | 1 |\n",
"| K562_peak_4 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | ⋯ | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 0 |\n",
"| HCT116_peak_4 | 3 | 2 | 0 | 1 | 3 | 3 | 1 | 0 | 3 | 2 | ⋯ | 0 | 1 | 3 | 1 | 2 | 1 | 0 | 1 | 1 | 2 |\n",
"| Hela_peak_5 | 0 | 0 | 0 | 0 | 0 | 2 | 0 | 0 | 0 | 0 | ⋯ | 0 | 0 | 0 | 0 | 0 | 0 | 2 | 1 | 0 | 0 |\n",
"| Hela_peak_6 | 0 | 0 | 0 | 0 | 2 | 2 | 1 | 2 | 1 | 1 | ⋯ | 2 | 1 | 1 | 0 | 1 | 0 | 2 | 0 | 0 | 1 |\n",
"| Hela_peak_7 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | ⋯ | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |\n",
"| HCT116_peak_6 | 0 | 1 | 0 | 0 | 2 | 1 | 0 | 2 | 2 | 1 | ⋯ | 0 | 0 | 1 | 0 | 1 | 0 | 0 | 0 | 0 | 1 |\n",
"| Hela_peak_9 | 0 | 0 | 0 | 1 | 1 | 0 | 0 | 1 | 0 | 0 | ⋯ | 0 | 0 | 0 | 0 | 1 | 0 | 1 | 0 | 0 | 0 |\n",
"| K562_peak_8 | 0 | 1 | 0 | 0 | 1 | 0 | 0 | 1 | 0 | 0 | ⋯ | 0 | 0 | 2 | 0 | 2 | 2 | 0 | 2 | 1 | 0 |\n",
"| HCT116_peak_8 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | ⋯ | 0 | 0 | 0 | 0 | 0 | 1 | 1 | 1 | 0 | 1 |\n",
"| Hela_peak_10 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | ⋯ | 0 | 0 | 1 | 0 | 0 | 0 | 1 | 0 | 0 | 0 |\n",
"| Hela_peak_11 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | ⋯ | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 1 | 0 | 0 |\n",
"| HCT116_peak_9 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | ⋯ | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 |\n",
"| Hela_peak_13 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 1 | 0 | 1 | ⋯ | 0 | 0 | 0 | 1 | 2 | 0 | 0 | 2 | 1 | 0 |\n",
"| Hela_peak_14 | 0 | 0 | 0 | 2 | 2 | 2 | 0 | 0 | 1 | 3 | ⋯ | 1 | 1 | 0 | 1 | 2 | 0 | 1 | 0 | 1 | 1 |\n",
"| HCT116_peak_13 | 0 | 0 | 0 | 0 | 0 | 2 | 0 | 0 | 0 | 0 | ⋯ | 0 | 0 | 1 | 0 | 0 | 0 | 1 | 1 | 0 | 1 |\n",
"| Hela_peak_15 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 1 | 0 | 1 | ⋯ | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 1 | 1 | 0 |\n",
"| Hela_peak_16b | 1 | 1 | 0 | 0 | 4 | 3 | 1 | 4 | 0 | 3 | ⋯ | 2 | 1 | 1 | 0 | 0 | 0 | 0 | 4 | 1 | 0 |\n",
"| Hela_peak_16e | 0 | 1 | 3 | 0 | 5 | 10 | 3 | 6 | 0 | 0 | ⋯ | 1 | 2 | 0 | 0 | 2 | 2 | 2 | 1 | 0 | 0 |\n",
"| Hela_peak_16f | 0 | 2 | 0 | 0 | 4 | 5 | 1 | 1 | 0 | 0 | ⋯ | 0 | 0 | 0 | 0 | 1 | 0 | 2 | 1 | 2 | 0 |\n",
"| K562_peak_11 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 2 | 0 | 0 | ⋯ | 0 | 1 | 1 | 0 | 1 | 0 | 0 | 0 | 0 | 0 |\n",
"| HCT116_peak_18 | 0 | 0 | 0 | 0 | 1 | 1 | 0 | 5 | 0 | 1 | ⋯ | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 1 | 0 |\n",
"| HCT116_peak_19 | 0 | 0 | 0 | 1 | 0 | 0 | 1 | 0 | 0 | 0 | ⋯ | 1 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 1 | 0 |\n",
"| HCT116_peak_20 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | ⋯ | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 |\n",
"| Hela_peak_17 | 0 | 0 | 1 | 0 | 3 | 1 | 0 | 1 | 0 | 0 | ⋯ | 2 | 0 | 2 | 0 | 0 | 2 | 1 | 2 | 0 | 1 |\n",
"| K562_peak_13 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | ⋯ | 0 | 1 | 1 | 1 | 2 | 1 | 0 | 1 | 0 | 2 |\n",
"| Hela_peak_19a | 1 | 1 | 0 | 0 | 0 | 1 | 0 | 2 | 0 | 0 | ⋯ | 3 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 1 | 2 |\n",
"| ⋮ | ⋮ | ⋮ | ⋮ | ⋮ | ⋮ | ⋮ | ⋮ | ⋮ | ⋮ | ⋮ | ⋱ | ⋮ | ⋮ | ⋮ | ⋮ | ⋮ | ⋮ | ⋮ | ⋮ | ⋮ | ⋮ |\n",
"| HCT116_peak_94189 | 0 | 0 | 0 | 2 | 0 | 0 | 0 | 3 | 1 | 0 | ⋯ | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 |\n",
"| HCT116_peak_94190 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | ⋯ | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 0 |\n",
"| HCT116_peak_94191 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 1 | 2 | 0 | ⋯ | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 0 |\n",
"| HCT116_peak_94192 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 1 | 0 | 0 | ⋯ | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 |\n",
"| HCT116_peak_94193 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | ⋯ | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 |\n",
"| Hela_peak_138830 | 0 | 0 | 0 | 0 | 1 | 2 | 0 | 0 | 0 | 0 | ⋯ | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 2 | 0 | 2 |\n",
"| HCT116_peak_94194 | 0 | 0 | 1 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | ⋯ | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |\n",
"| Hela_peak_138831 | 0 | 0 | 0 | 2 | 0 | 1 | 0 | 0 | 0 | 1 | ⋯ | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 1 | 0 |\n",
"| HCT116_peak_94195 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | ⋯ | 0 | 0 | 2 | 0 | 0 | 0 | 2 | 0 | 0 | 0 |\n",
"| Hela_peak_138832 | 0 | 0 | 0 | 0 | 2 | 3 | 0 | 1 | 1 | 0 | ⋯ | 1 | 1 | 0 | 0 | 1 | 0 | 2 | 2 | 1 | 1 |\n",
"| K562_peak_58078 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | ⋯ | 1 | 0 | 0 | 0 | 0 | 0 | 2 | 0 | 0 | 0 |\n",
"| K562_peak_58079 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 3 | 0 | 0 | ⋯ | 0 | 1 | 0 | 0 | 0 | 0 | 1 | 1 | 0 | 0 |\n",
"| Hela_peak_138833 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 3 | 1 | 0 | ⋯ | 1 | 3 | 0 | 0 | 0 | 0 | 0 | 1 | 1 | 0 |\n",
"| HCT116_peak_94198 | 1 | 0 | 0 | 0 | 0 | 1 | 1 | 1 | 0 | 0 | ⋯ | 3 | 0 | 0 | 0 | 2 | 1 | 0 | 1 | 0 | 1 |\n",
"| K562_peak_58080 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 1 | 0 | 0 | ⋯ | 3 | 0 | 0 | 0 | 2 | 0 | 0 | 0 | 0 | 1 |\n",
"| Hela_peak_138835 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | ⋯ | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 |\n",
"| HCT116_peak_94199 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 2 | 0 | 0 | ⋯ | 0 | 1 | 0 | 0 | 1 | 0 | 0 | 1 | 0 | 0 |\n",
"| HCT116_peak_94200 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | ⋯ | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |\n",
"| Hela_peak_138836 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | ⋯ | 1 | 0 | 0 | 0 | 0 | 2 | 0 | 0 | 0 | 0 |\n",
"| Hela_peak_138837 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | ⋯ | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 |\n",
"| HCT116_peak_94201 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | ⋯ | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |\n",
"| Hela_peak_138838 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 1 | ⋯ | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |\n",
"| Hela_peak_138839 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 3 | 0 | 0 | ⋯ | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |\n",
"| HCT116_peak_94203 | 3 | 0 | 0 | 0 | 2 | 2 | 2 | 3 | 1 | 0 | ⋯ | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |\n",
"| HCT116_peak_94204 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | ⋯ | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 0 |\n",
"| HCT116_peak_94205 | 0 | 0 | 1 | 1 | 0 | 2 | 0 | 1 | 2 | 1 | ⋯ | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 1 |\n",
"| Hela_peak_138842 | 0 | 0 | 1 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | ⋯ | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |\n",
"| HCT116_peak_94206 | 1 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | ⋯ | 0 | 0 | 0 | 0 | 0 | 2 | 0 | 0 | 0 | 0 |\n",
"| Hela_peak_138843 | 0 | 0 | 0 | 0 | 0 | 2 | 1 | 0 | 0 | 0 | ⋯ | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |\n",
"| HCT116_peak_94207 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | ⋯ | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |\n",
"\n"
],
"text/plain": [
" HCT_CL100049490_L01_10 HCT_CL100049490_L01_14\n",
"HCT116_peak_1 0 0 \n",
"Hela_peak_2 1 3 \n",
"K562_peak_2 1 0 \n",
"HCT116_peak_3 0 5 \n",
"K562_peak_4 0 0 \n",
"HCT116_peak_4 3 2 \n",
"Hela_peak_5 0 0 \n",
"Hela_peak_6 0 0 \n",
"Hela_peak_7 0 0 \n",
"HCT116_peak_6 0 1 \n",
"Hela_peak_9 0 0 \n",
"K562_peak_8 0 1 \n",
"HCT116_peak_8 0 0 \n",
"Hela_peak_10 0 0 \n",
"Hela_peak_11 0 0 \n",
"HCT116_peak_9 0 0 \n",
"Hela_peak_13 0 0 \n",
"Hela_peak_14 0 0 \n",
"HCT116_peak_13 0 0 \n",
"Hela_peak_15 0 0 \n",
"Hela_peak_16b 1 1 \n",
"Hela_peak_16e 0 1 \n",
"Hela_peak_16f 0 2 \n",
"K562_peak_11 0 0 \n",
"HCT116_peak_18 0 0 \n",
"HCT116_peak_19 0 0 \n",
"HCT116_peak_20 0 0 \n",
"Hela_peak_17 0 0 \n",
"K562_peak_13 0 0 \n",
"Hela_peak_19a 1 1 \n",
"⋮ ⋮ ⋮ \n",
"HCT116_peak_94189 0 0 \n",
"HCT116_peak_94190 0 0 \n",
"HCT116_peak_94191 0 0 \n",
"HCT116_peak_94192 0 0 \n",
"HCT116_peak_94193 0 0 \n",
"Hela_peak_138830 0 0 \n",
"HCT116_peak_94194 0 0 \n",
"Hela_peak_138831 0 0 \n",
"HCT116_peak_94195 0 0 \n",
"Hela_peak_138832 0 0 \n",
"K562_peak_58078 0 0 \n",
"K562_peak_58079 0 0 \n",
"Hela_peak_138833 0 0 \n",
"HCT116_peak_94198 1 0 \n",
"K562_peak_58080 0 0 \n",
"Hela_peak_138835 0 0 \n",
"HCT116_peak_94199 0 0 \n",
"HCT116_peak_94200 0 0 \n",
"Hela_peak_138836 0 0 \n",
"Hela_peak_138837 0 0 \n",
"HCT116_peak_94201 0 0 \n",
"Hela_peak_138838 0 0 \n",
"Hela_peak_138839 0 0 \n",
"HCT116_peak_94203 3 0 \n",
"HCT116_peak_94204 0 0 \n",
"HCT116_peak_94205 0 0 \n",
"Hela_peak_138842 0 0 \n",
"HCT116_peak_94206 1 0 \n",
"Hela_peak_138843 0 0 \n",
"HCT116_peak_94207 0 0 \n",
" HCT_CL100049490_L01_15 HCT_CL100049490_L01_16\n",
"HCT116_peak_1 1 0 \n",
"Hela_peak_2 2 2 \n",
"K562_peak_2 0 0 \n",
"HCT116_peak_3 0 0 \n",
"K562_peak_4 0 0 \n",
"HCT116_peak_4 0 1 \n",
"Hela_peak_5 0 0 \n",
"Hela_peak_6 0 0 \n",
"Hela_peak_7 0 0 \n",
"HCT116_peak_6 0 0 \n",
"Hela_peak_9 0 1 \n",
"K562_peak_8 0 0 \n",
"HCT116_peak_8 0 0 \n",
"Hela_peak_10 0 0 \n",
"Hela_peak_11 0 0 \n",
"HCT116_peak_9 0 0 \n",
"Hela_peak_13 0 0 \n",
"Hela_peak_14 0 2 \n",
"HCT116_peak_13 0 0 \n",
"Hela_peak_15 0 0 \n",
"Hela_peak_16b 0 0 \n",
"Hela_peak_16e 3 0 \n",
"Hela_peak_16f 0 0 \n",
"K562_peak_11 0 0 \n",
"HCT116_peak_18 0 0 \n",
"HCT116_peak_19 0 1 \n",
"HCT116_peak_20 0 0 \n",
"Hela_peak_17 1 0 \n",
"K562_peak_13 0 0 \n",
"Hela_peak_19a 0 0 \n",
"⋮ ⋮ ⋮ \n",
"HCT116_peak_94189 0 2 \n",
"HCT116_peak_94190 0 0 \n",
"HCT116_peak_94191 0 0 \n",
"HCT116_peak_94192 0 0 \n",
"HCT116_peak_94193 0 0 \n",
"Hela_peak_138830 0 0 \n",
"HCT116_peak_94194 1 0 \n",
"Hela_peak_138831 0 2 \n",
"HCT116_peak_94195 0 0 \n",
"Hela_peak_138832 0 0 \n",
"K562_peak_58078 0 0 \n",
"K562_peak_58079 0 0 \n",
"Hela_peak_138833 0 0 \n",
"HCT116_peak_94198 0 0 \n",
"K562_peak_58080 0 0 \n",
"Hela_peak_138835 0 0 \n",
"HCT116_peak_94199 0 0 \n",
"HCT116_peak_94200 0 0 \n",
"Hela_peak_138836 0 0 \n",
"Hela_peak_138837 0 0 \n",
"HCT116_peak_94201 0 0 \n",
"Hela_peak_138838 0 0 \n",
"Hela_peak_138839 0 0 \n",
"HCT116_peak_94203 0 0 \n",
"HCT116_peak_94204 0 0 \n",
"HCT116_peak_94205 1 1 \n",
"Hela_peak_138842 1 0 \n",
"HCT116_peak_94206 0 0 \n",
"Hela_peak_138843 0 0 \n",
"HCT116_peak_94207 0 0 \n",
" HCT_CL100049490_L01_19 HCT_CL100049490_L01_2\n",
"HCT116_peak_1 0 1 \n",
"Hela_peak_2 2 8 \n",
"K562_peak_2 0 0 \n",
"HCT116_peak_3 4 2 \n",
"K562_peak_4 0 1 \n",
"HCT116_peak_4 3 3 \n",
"Hela_peak_5 0 2 \n",
"Hela_peak_6 2 2 \n",
"Hela_peak_7 0 0 \n",
"HCT116_peak_6 2 1 \n",
"Hela_peak_9 1 0 \n",
"K562_peak_8 1 0 \n",
"HCT116_peak_8 0 0 \n",
"Hela_peak_10 0 0 \n",
"Hela_peak_11 0 0 \n",
"HCT116_peak_9 0 0 \n",
"Hela_peak_13 0 0 \n",
"Hela_peak_14 2 2 \n",
"HCT116_peak_13 0 2 \n",
"Hela_peak_15 0 0 \n",
"Hela_peak_16b 4 3 \n",
"Hela_peak_16e 5 10 \n",
"Hela_peak_16f 4 5 \n",
"K562_peak_11 0 1 \n",
"HCT116_peak_18 1 1 \n",
"HCT116_peak_19 0 0 \n",
"HCT116_peak_20 0 0 \n",
"Hela_peak_17 3 1 \n",
"K562_peak_13 0 0 \n",
"Hela_peak_19a 0 1 \n",
"⋮ ⋮ ⋮ \n",
"HCT116_peak_94189 0 0 \n",
"HCT116_peak_94190 0 0 \n",
"HCT116_peak_94191 0 0 \n",
"HCT116_peak_94192 1 0 \n",
"HCT116_peak_94193 0 0 \n",
"Hela_peak_138830 1 2 \n",
"HCT116_peak_94194 0 1 \n",
"Hela_peak_138831 0 1 \n",
"HCT116_peak_94195 0 0 \n",
"Hela_peak_138832 2 3 \n",
"K562_peak_58078 0 1 \n",
"K562_peak_58079 0 1 \n",
"Hela_peak_138833 0 0 \n",
"HCT116_peak_94198 0 1 \n",
"K562_peak_58080 0 0 \n",
"Hela_peak_138835 0 0 \n",
"HCT116_peak_94199 0 0 \n",
"HCT116_peak_94200 0 0 \n",
"Hela_peak_138836 0 0 \n",
"Hela_peak_138837 0 1 \n",
"HCT116_peak_94201 0 1 \n",
"Hela_peak_138838 0 0 \n",
"Hela_peak_138839 0 1 \n",
"HCT116_peak_94203 2 2 \n",
"HCT116_peak_94204 0 0 \n",
"HCT116_peak_94205 0 2 \n",
"Hela_peak_138842 0 1 \n",
"HCT116_peak_94206 0 1 \n",
"Hela_peak_138843 0 2 \n",
"HCT116_peak_94207 0 0 \n",
" HCT_CL100049490_L01_21 HCT_CL100049490_L01_22\n",
"HCT116_peak_1 0 0 \n",
"Hela_peak_2 4 1 \n",
"K562_peak_2 1 1 \n",
"HCT116_peak_3 1 2 \n",
"K562_peak_4 0 0 \n",
"HCT116_peak_4 1 0 \n",
"Hela_peak_5 0 0 \n",
"Hela_peak_6 1 2 \n",
"Hela_peak_7 0 0 \n",
"HCT116_peak_6 0 2 \n",
"Hela_peak_9 0 1 \n",
"K562_peak_8 0 1 \n",
"HCT116_peak_8 0 0 \n",
"Hela_peak_10 0 0 \n",
"Hela_peak_11 0 0 \n",
"HCT116_peak_9 0 0 \n",
"Hela_peak_13 1 1 \n",
"Hela_peak_14 0 0 \n",
"HCT116_peak_13 0 0 \n",
"Hela_peak_15 1 1 \n",
"Hela_peak_16b 1 4 \n",
"Hela_peak_16e 3 6 \n",
"Hela_peak_16f 1 1 \n",
"K562_peak_11 0 2 \n",
"HCT116_peak_18 0 5 \n",
"HCT116_peak_19 1 0 \n",
"HCT116_peak_20 0 0 \n",
"Hela_peak_17 0 1 \n",
"K562_peak_13 0 0 \n",
"Hela_peak_19a 0 2 \n",
"⋮ ⋮ ⋮ \n",
"HCT116_peak_94189 0 3 \n",
"HCT116_peak_94190 0 0 \n",
"HCT116_peak_94191 1 1 \n",
"HCT116_peak_94192 0 1 \n",
"HCT116_peak_94193 1 0 \n",
"Hela_peak_138830 0 0 \n",
"HCT116_peak_94194 0 0 \n",
"Hela_peak_138831 0 0 \n",
"HCT116_peak_94195 0 0 \n",
"Hela_peak_138832 0 1 \n",
"K562_peak_58078 0 0 \n",
"K562_peak_58079 0 3 \n",
"Hela_peak_138833 0 3 \n",
"HCT116_peak_94198 1 1 \n",
"K562_peak_58080 1 1 \n",
"Hela_peak_138835 0 0 \n",
"HCT116_peak_94199 0 2 \n",
"HCT116_peak_94200 0 0 \n",
"Hela_peak_138836 0 0 \n",
"Hela_peak_138837 0 0 \n",
"HCT116_peak_94201 0 0 \n",
"Hela_peak_138838 1 0 \n",
"Hela_peak_138839 0 3 \n",
"HCT116_peak_94203 2 3 \n",
"HCT116_peak_94204 0 0 \n",
"HCT116_peak_94205 0 1 \n",
"Hela_peak_138842 0 0 \n",
"HCT116_peak_94206 0 0 \n",
"Hela_peak_138843 1 0 \n",
"HCT116_peak_94207 0 0 \n",
" HCT_CL100049490_L01_24 HCT_CL100049490_L01_27 ⋯\n",
"HCT116_peak_1 0 0 ⋯\n",
"Hela_peak_2 1 0 ⋯\n",
"K562_peak_2 0 0 ⋯\n",
"HCT116_peak_3 0 0 ⋯\n",
"K562_peak_4 0 0 ⋯\n",
"HCT116_peak_4 3 2 ⋯\n",
"Hela_peak_5 0 0 ⋯\n",
"Hela_peak_6 1 1 ⋯\n",
"Hela_peak_7 0 0 ⋯\n",
"HCT116_peak_6 2 1 ⋯\n",
"Hela_peak_9 0 0 ⋯\n",
"K562_peak_8 0 0 ⋯\n",
"HCT116_peak_8 0 0 ⋯\n",
"Hela_peak_10 0 0 ⋯\n",
"Hela_peak_11 0 0 ⋯\n",
"HCT116_peak_9 0 0 ⋯\n",
"Hela_peak_13 0 1 ⋯\n",
"Hela_peak_14 1 3 ⋯\n",
"HCT116_peak_13 0 0 ⋯\n",
"Hela_peak_15 0 1 ⋯\n",
"Hela_peak_16b 0 3 ⋯\n",
"Hela_peak_16e 0 0 ⋯\n",
"Hela_peak_16f 0 0 ⋯\n",
"K562_peak_11 0 0 ⋯\n",
"HCT116_peak_18 0 1 ⋯\n",
"HCT116_peak_19 0 0 ⋯\n",
"HCT116_peak_20 0 0 ⋯\n",
"Hela_peak_17 0 0 ⋯\n",
"K562_peak_13 0 0 ⋯\n",
"Hela_peak_19a 0 0 ⋯\n",
"⋮ ⋮ ⋮ ⋱\n",
"HCT116_peak_94189 1 0 ⋯\n",
"HCT116_peak_94190 0 0 ⋯\n",
"HCT116_peak_94191 2 0 ⋯\n",
"HCT116_peak_94192 0 0 ⋯\n",
"HCT116_peak_94193 0 0 ⋯\n",
"Hela_peak_138830 0 0 ⋯\n",
"HCT116_peak_94194 0 0 ⋯\n",
"Hela_peak_138831 0 1 ⋯\n",
"HCT116_peak_94195 0 0 ⋯\n",
"Hela_peak_138832 1 0 ⋯\n",
"K562_peak_58078 0 0 ⋯\n",
"K562_peak_58079 0 0 ⋯\n",
"Hela_peak_138833 1 0 ⋯\n",
"HCT116_peak_94198 0 0 ⋯\n",
"K562_peak_58080 0 0 ⋯\n",
"Hela_peak_138835 0 0 ⋯\n",
"HCT116_peak_94199 0 0 ⋯\n",
"HCT116_peak_94200 0 0 ⋯\n",
"Hela_peak_138836 0 0 ⋯\n",
"Hela_peak_138837 0 0 ⋯\n",
"HCT116_peak_94201 0 0 ⋯\n",
"Hela_peak_138838 0 1 ⋯\n",
"Hela_peak_138839 0 0 ⋯\n",
"HCT116_peak_94203 1 0 ⋯\n",
"HCT116_peak_94204 0 0 ⋯\n",
"HCT116_peak_94205 2 1 ⋯\n",
"Hela_peak_138842 0 0 ⋯\n",
"HCT116_peak_94206 0 0 ⋯\n",
"Hela_peak_138843 0 0 ⋯\n",
"HCT116_peak_94207 0 0 ⋯\n",
" K562_CL100050926_L02_79 K562_CL100050926_L02_81\n",
"HCT116_peak_1 3 1 \n",
"Hela_peak_2 0 4 \n",
"K562_peak_2 0 1 \n",
"HCT116_peak_3 0 1 \n",
"K562_peak_4 0 0 \n",
"HCT116_peak_4 0 1 \n",
"Hela_peak_5 0 0 \n",
"Hela_peak_6 2 1 \n",
"Hela_peak_7 1 0 \n",
"HCT116_peak_6 0 0 \n",
"Hela_peak_9 0 0 \n",
"K562_peak_8 0 0 \n",
"HCT116_peak_8 0 0 \n",
"Hela_peak_10 0 0 \n",
"Hela_peak_11 0 0 \n",
"HCT116_peak_9 0 0 \n",
"Hela_peak_13 0 0 \n",
"Hela_peak_14 1 1 \n",
"HCT116_peak_13 0 0 \n",
"Hela_peak_15 0 0 \n",
"Hela_peak_16b 2 1 \n",
"Hela_peak_16e 1 2 \n",
"Hela_peak_16f 0 0 \n",
"K562_peak_11 0 1 \n",
"HCT116_peak_18 1 0 \n",
"HCT116_peak_19 1 0 \n",
"HCT116_peak_20 0 0 \n",
"Hela_peak_17 2 0 \n",
"K562_peak_13 0 1 \n",
"Hela_peak_19a 3 0 \n",
"⋮ ⋮ ⋮ \n",
"HCT116_peak_94189 0 0 \n",
"HCT116_peak_94190 0 0 \n",
"HCT116_peak_94191 0 0 \n",
"HCT116_peak_94192 0 0 \n",
"HCT116_peak_94193 0 0 \n",
"Hela_peak_138830 0 0 \n",
"HCT116_peak_94194 0 0 \n",
"Hela_peak_138831 0 0 \n",
"HCT116_peak_94195 0 0 \n",
"Hela_peak_138832 1 1 \n",
"K562_peak_58078 1 0 \n",
"K562_peak_58079 0 1 \n",
"Hela_peak_138833 1 3 \n",
"HCT116_peak_94198 3 0 \n",
"K562_peak_58080 3 0 \n",
"Hela_peak_138835 1 0 \n",
"HCT116_peak_94199 0 1 \n",
"HCT116_peak_94200 1 0 \n",
"Hela_peak_138836 1 0 \n",
"Hela_peak_138837 0 0 \n",
"HCT116_peak_94201 0 0 \n",
"Hela_peak_138838 0 0 \n",
"Hela_peak_138839 0 0 \n",
"HCT116_peak_94203 0 0 \n",
"HCT116_peak_94204 0 0 \n",
"HCT116_peak_94205 0 0 \n",
"Hela_peak_138842 0 0 \n",
"HCT116_peak_94206 0 0 \n",
"Hela_peak_138843 0 0 \n",
"HCT116_peak_94207 0 0 \n",
" K562_CL100050926_L02_83 K562_CL100050926_L02_84\n",
"HCT116_peak_1 1 2 \n",
"Hela_peak_2 2 1 \n",
"K562_peak_2 0 0 \n",
"HCT116_peak_3 0 4 \n",
"K562_peak_4 0 0 \n",
"HCT116_peak_4 3 1 \n",
"Hela_peak_5 0 0 \n",
"Hela_peak_6 1 0 \n",
"Hela_peak_7 0 0 \n",
"HCT116_peak_6 1 0 \n",
"Hela_peak_9 0 0 \n",
"K562_peak_8 2 0 \n",
"HCT116_peak_8 0 0 \n",
"Hela_peak_10 1 0 \n",
"Hela_peak_11 0 1 \n",
"HCT116_peak_9 0 0 \n",
"Hela_peak_13 0 1 \n",
"Hela_peak_14 0 1 \n",
"HCT116_peak_13 1 0 \n",
"Hela_peak_15 0 0 \n",
"Hela_peak_16b 1 0 \n",
"Hela_peak_16e 0 0 \n",
"Hela_peak_16f 0 0 \n",
"K562_peak_11 1 0 \n",
"HCT116_peak_18 0 0 \n",
"HCT116_peak_19 0 0 \n",
"HCT116_peak_20 0 0 \n",
"Hela_peak_17 2 0 \n",
"K562_peak_13 1 1 \n",
"Hela_peak_19a 0 0 \n",
"⋮ ⋮ ⋮ \n",
"HCT116_peak_94189 0 0 \n",
"HCT116_peak_94190 0 0 \n",
"HCT116_peak_94191 0 0 \n",
"HCT116_peak_94192 0 0 \n",
"HCT116_peak_94193 0 0 \n",
"Hela_peak_138830 0 0 \n",
"HCT116_peak_94194 0 0 \n",
"Hela_peak_138831 0 0 \n",
"HCT116_peak_94195 2 0 \n",
"Hela_peak_138832 0 0 \n",
"K562_peak_58078 0 0 \n",
"K562_peak_58079 0 0 \n",
"Hela_peak_138833 0 0 \n",
"HCT116_peak_94198 0 0 \n",
"K562_peak_58080 0 0 \n",
"Hela_peak_138835 0 0 \n",
"HCT116_peak_94199 0 0 \n",
"HCT116_peak_94200 0 0 \n",
"Hela_peak_138836 0 0 \n",
"Hela_peak_138837 0 0 \n",
"HCT116_peak_94201 0 0 \n",
"Hela_peak_138838 0 0 \n",
"Hela_peak_138839 0 0 \n",
"HCT116_peak_94203 0 0 \n",
"HCT116_peak_94204 0 1 \n",
"HCT116_peak_94205 0 0 \n",
"Hela_peak_138842 0 0 \n",
"HCT116_peak_94206 0 0 \n",
"Hela_peak_138843 0 0 \n",
"HCT116_peak_94207 0 0 \n",
" K562_CL100050926_L02_85 K562_CL100050926_L02_86\n",
"HCT116_peak_1 1 0 \n",
"Hela_peak_2 0 2 \n",
"K562_peak_2 0 0 \n",
"HCT116_peak_3 0 1 \n",
"K562_peak_4 0 1 \n",
"HCT116_peak_4 2 1 \n",
"Hela_peak_5 0 0 \n",
"Hela_peak_6 1 0 \n",
"Hela_peak_7 0 0 \n",
"HCT116_peak_6 1 0 \n",
"Hela_peak_9 1 0 \n",
"K562_peak_8 2 2 \n",
"HCT116_peak_8 0 1 \n",
"Hela_peak_10 0 0 \n",
"Hela_peak_11 0 0 \n",
"HCT116_peak_9 0 0 \n",
"Hela_peak_13 2 0 \n",
"Hela_peak_14 2 0 \n",
"HCT116_peak_13 0 0 \n",
"Hela_peak_15 0 0 \n",
"Hela_peak_16b 0 0 \n",
"Hela_peak_16e 2 2 \n",
"Hela_peak_16f 1 0 \n",
"K562_peak_11 1 0 \n",
"HCT116_peak_18 0 0 \n",
"HCT116_peak_19 0 0 \n",
"HCT116_peak_20 0 0 \n",
"Hela_peak_17 0 2 \n",
"K562_peak_13 2 1 \n",
"Hela_peak_19a 0 0 \n",
"⋮ ⋮ ⋮ \n",
"HCT116_peak_94189 0 0 \n",
"HCT116_peak_94190 1 0 \n",
"HCT116_peak_94191 1 0 \n",
"HCT116_peak_94192 0 0 \n",
"HCT116_peak_94193 0 0 \n",
"Hela_peak_138830 0 0 \n",
"HCT116_peak_94194 0 0 \n",
"Hela_peak_138831 0 1 \n",
"HCT116_peak_94195 0 0 \n",
"Hela_peak_138832 1 0 \n",
"K562_peak_58078 0 0 \n",
"K562_peak_58079 0 0 \n",
"Hela_peak_138833 0 0 \n",
"HCT116_peak_94198 2 1 \n",
"K562_peak_58080 2 0 \n",
"Hela_peak_138835 0 0 \n",
"HCT116_peak_94199 1 0 \n",
"HCT116_peak_94200 0 0 \n",
"Hela_peak_138836 0 2 \n",
"Hela_peak_138837 0 0 \n",
"HCT116_peak_94201 0 0 \n",
"Hela_peak_138838 0 0 \n",
"Hela_peak_138839 0 0 \n",
"HCT116_peak_94203 0 0 \n",
"HCT116_peak_94204 0 0 \n",
"HCT116_peak_94205 0 0 \n",
"Hela_peak_138842 0 0 \n",
"HCT116_peak_94206 0 2 \n",
"Hela_peak_138843 0 0 \n",
"HCT116_peak_94207 0 0 \n",
" K562_CL100050926_L02_87 K562_CL100050926_L02_88\n",
"HCT116_peak_1 1 2 \n",
"Hela_peak_2 1 0 \n",
"K562_peak_2 0 0 \n",
"HCT116_peak_3 2 2 \n",
"K562_peak_4 0 0 \n",
"HCT116_peak_4 0 1 \n",
"Hela_peak_5 2 1 \n",
"Hela_peak_6 2 0 \n",
"Hela_peak_7 0 0 \n",
"HCT116_peak_6 0 0 \n",
"Hela_peak_9 1 0 \n",
"K562_peak_8 0 2 \n",
"HCT116_peak_8 1 1 \n",
"Hela_peak_10 1 0 \n",
"Hela_peak_11 0 1 \n",
"HCT116_peak_9 0 1 \n",
"Hela_peak_13 0 2 \n",
"Hela_peak_14 1 0 \n",
"HCT116_peak_13 1 1 \n",
"Hela_peak_15 1 1 \n",
"Hela_peak_16b 0 4 \n",
"Hela_peak_16e 2 1 \n",
"Hela_peak_16f 2 1 \n",
"K562_peak_11 0 0 \n",
"HCT116_peak_18 0 1 \n",
"HCT116_peak_19 1 0 \n",
"HCT116_peak_20 0 0 \n",
"Hela_peak_17 1 2 \n",
"K562_peak_13 0 1 \n",
"Hela_peak_19a 0 1 \n",
"⋮ ⋮ ⋮ \n",
"HCT116_peak_94189 0 1 \n",
"HCT116_peak_94190 0 0 \n",
"HCT116_peak_94191 0 0 \n",
"HCT116_peak_94192 0 0 \n",
"HCT116_peak_94193 0 1 \n",
"Hela_peak_138830 1 2 \n",
"HCT116_peak_94194 0 0 \n",
"Hela_peak_138831 0 0 \n",
"HCT116_peak_94195 2 0 \n",
"Hela_peak_138832 2 2 \n",
"K562_peak_58078 2 0 \n",
"K562_peak_58079 1 1 \n",
"Hela_peak_138833 0 1 \n",
"HCT116_peak_94198 0 1 \n",
"K562_peak_58080 0 0 \n",
"Hela_peak_138835 0 0 \n",
"HCT116_peak_94199 0 1 \n",
"HCT116_peak_94200 0 0 \n",
"Hela_peak_138836 0 0 \n",
"Hela_peak_138837 0 0 \n",
"HCT116_peak_94201 0 0 \n",
"Hela_peak_138838 0 0 \n",
"Hela_peak_138839 0 0 \n",
"HCT116_peak_94203 0 0 \n",
"HCT116_peak_94204 0 0 \n",
"HCT116_peak_94205 0 0 \n",
"Hela_peak_138842 0 0 \n",
"HCT116_peak_94206 0 0 \n",
"Hela_peak_138843 0 0 \n",
"HCT116_peak_94207 0 0 \n",
" K562_CL100050926_L02_92 K562_CL100050926_L02_93\n",
"HCT116_peak_1 0 0 \n",
"Hela_peak_2 0 0 \n",
"K562_peak_2 0 0 \n",
"HCT116_peak_3 2 1 \n",
"K562_peak_4 0 0 \n",
"HCT116_peak_4 1 2 \n",
"Hela_peak_5 0 0 \n",
"Hela_peak_6 0 1 \n",
"Hela_peak_7 0 0 \n",
"HCT116_peak_6 0 1 \n",
"Hela_peak_9 0 0 \n",
"K562_peak_8 1 0 \n",
"HCT116_peak_8 0 1 \n",
"Hela_peak_10 0 0 \n",
"Hela_peak_11 0 0 \n",
"HCT116_peak_9 0 0 \n",
"Hela_peak_13 1 0 \n",
"Hela_peak_14 1 1 \n",
"HCT116_peak_13 0 1 \n",
"Hela_peak_15 1 0 \n",
"Hela_peak_16b 1 0 \n",
"Hela_peak_16e 0 0 \n",
"Hela_peak_16f 2 0 \n",
"K562_peak_11 0 0 \n",
"HCT116_peak_18 1 0 \n",
"HCT116_peak_19 1 0 \n",
"HCT116_peak_20 0 1 \n",
"Hela_peak_17 0 1 \n",
"K562_peak_13 0 2 \n",
"Hela_peak_19a 1 2 \n",
"⋮ ⋮ ⋮ \n",
"HCT116_peak_94189 0 0 \n",
"HCT116_peak_94190 0 0 \n",
"HCT116_peak_94191 0 0 \n",
"HCT116_peak_94192 1 0 \n",
"HCT116_peak_94193 0 0 \n",
"Hela_peak_138830 0 2 \n",
"HCT116_peak_94194 0 0 \n",
"Hela_peak_138831 1 0 \n",
"HCT116_peak_94195 0 0 \n",
"Hela_peak_138832 1 1 \n",
"K562_peak_58078 0 0 \n",
"K562_peak_58079 0 0 \n",
"Hela_peak_138833 1 0 \n",
"HCT116_peak_94198 0 1 \n",
"K562_peak_58080 0 1 \n",
"Hela_peak_138835 0 1 \n",
"HCT116_peak_94199 0 0 \n",
"HCT116_peak_94200 0 0 \n",
"Hela_peak_138836 0 0 \n",
"Hela_peak_138837 0 1 \n",
"HCT116_peak_94201 0 0 \n",
"Hela_peak_138838 0 0 \n",
"Hela_peak_138839 0 0 \n",
"HCT116_peak_94203 0 0 \n",
"HCT116_peak_94204 0 0 \n",
"HCT116_peak_94205 1 1 \n",
"Hela_peak_138842 0 0 \n",
"HCT116_peak_94206 0 0 \n",
"Hela_peak_138843 0 0 \n",
"HCT116_peak_94207 0 0 "
]
},
"metadata": {},
"output_type": "display_data"
}
],
"source": [
"atac_counts"
]
},
{
"cell_type": "code",
"execution_count": 7,
"metadata": {},
"outputs": [
{
"data": {
"text/html": [
"<table>\n",
"<caption>A data.frame: 206 × 32</caption>\n",
"<thead>\n",
"\t<tr><th></th><th scope=col>sample.rna</th><th scope=col>sample.atac</th><th scope=col>Total.Read.Pairs</th><th scope=col>Mapped.read.pairs</th><th scope=col>chrM.read.pairs</th><th scope=col>Unique.Flagments</th><th scope=col>Usable.Flagments</th><th scope=col>Flagments.in.peaks</th><th scope=col>Rate.of.Flagments.in.peaks...</th><th scope=col>lane.atac</th><th scope=col>⋯</th><th scope=col>unique.mapped.gene.</th><th scope=col>Multiple.mapped.gene.</th><th scope=col>Gene.mapped.rate...</th><th scope=col>Gene.number.FPKM..1.</th><th scope=col>ERCC.number</th><th scope=col>lane.rna.y</th><th scope=col>batch.rna.y</th><th scope=col>celltype</th><th scope=col>quality.pass</th><th scope=col>Type</th></tr>\n",
"\t<tr><th></th><th scope=col><chr></th><th scope=col><chr></th><th scope=col><int></th><th scope=col><int></th><th scope=col><int></th><th scope=col><int></th><th scope=col><int></th><th scope=col><int></th><th scope=col><dbl></th><th scope=col><chr></th><th scope=col>⋯</th><th scope=col><int></th><th scope=col><int></th><th scope=col><dbl></th><th scope=col><int></th><th scope=col><int></th><th scope=col><chr></th><th scope=col><chr></th><th scope=col><chr></th><th scope=col><int></th><th scope=col><chr></th></tr>\n",
"</thead>\n",
"<tbody>\n",
"\t<tr><th scope=row>1</th><td>HCT_CL100049490_L01_10</td><td>HCT_CL100050215_L01_10</td><td> 5652832</td><td>2142410</td><td> 308401</td><td>288574</td><td>287830</td><td> 43823</td><td>15.22531</td><td>CL100050215_L01</td><td>⋯</td><td>2428210</td><td> 6764665</td><td>79.13</td><td>12728</td><td>57</td><td>CL100049490_L01</td><td>scCAT_20171127_HCT_R1_1.Summary.xls</td><td>HCT</td><td>1</td><td>HCT</td></tr>\n",
"\t<tr><th scope=row>2</th><td>HCT_CL100049490_L01_14</td><td>HCT_CL100050215_L01_14</td><td> 7927709</td><td>2420888</td><td> 227655</td><td>168073</td><td>167591</td><td> 47288</td><td>28.21631</td><td>CL100050215_L01</td><td>⋯</td><td>2454685</td><td> 6494370</td><td>74.84</td><td>12813</td><td>55</td><td>CL100049490_L01</td><td>scCAT_20171127_HCT_R1_1.Summary.xls</td><td>HCT</td><td>1</td><td>HCT</td></tr>\n",
"\t<tr><th scope=row>3</th><td>HCT_CL100049490_L01_15</td><td>HCT_CL100050215_L01_15</td><td> 8299477</td><td>3220612</td><td> 261155</td><td>295228</td><td>294344</td><td> 60415</td><td>20.52530</td><td>CL100050215_L01</td><td>⋯</td><td>3394474</td><td> 9403818</td><td>77.33</td><td>13510</td><td>55</td><td>CL100049490_L01</td><td>scCAT_20171127_HCT_R1_1.Summary.xls</td><td>HCT</td><td>1</td><td>HCT</td></tr>\n",
"\t<tr><th scope=row>4</th><td>HCT_CL100049490_L01_16</td><td>HCT_CL100050215_L01_16</td><td> 7949453</td><td>2976918</td><td> 181194</td><td>203974</td><td>203278</td><td> 46737</td><td>22.99167</td><td>CL100050215_L01</td><td>⋯</td><td>3689905</td><td> 8437816</td><td>76.62</td><td>11754</td><td>55</td><td>CL100049490_L01</td><td>scCAT_20171127_HCT_R1_1.Summary.xls</td><td>HCT</td><td>1</td><td>HCT</td></tr>\n",
"\t<tr><th scope=row>5</th><td>HCT_CL100049490_L01_19</td><td>HCT_CL100050215_L01_19</td><td>11619678</td><td>4256602</td><td> 461415</td><td>440250</td><td>439264</td><td> 92790</td><td>21.12397</td><td>CL100050215_L01</td><td>⋯</td><td>2606176</td><td> 6962609</td><td>79.86</td><td>13875</td><td>55</td><td>CL100049490_L01</td><td>scCAT_20171127_HCT_R1_1.Summary.xls</td><td>HCT</td><td>1</td><td>HCT</td></tr>\n",
"\t<tr><th scope=row>6</th><td>HCT_CL100049490_L01_2 </td><td>HCT_CL100050215_L01_2 </td><td>15639248</td><td>6190197</td><td> 491529</td><td>672421</td><td>670961</td><td>116239</td><td>17.32426</td><td>CL100050215_L01</td><td>⋯</td><td>4587203</td><td>11397784</td><td>78.55</td><td>13526</td><td>59</td><td>CL100049490_L01</td><td>scCAT_20171127_HCT_R1_1.Summary.xls</td><td>HCT</td><td>1</td><td>HCT</td></tr>\n",
"\t<tr><th scope=row>7</th><td>HCT_CL100049490_L01_21</td><td>HCT_CL100050215_L01_21</td><td>12207598</td><td>4472701</td><td> 316767</td><td>310128</td><td>309360</td><td> 55739</td><td>18.01752</td><td>CL100050215_L01</td><td>⋯</td><td>3625588</td><td>10465020</td><td>81.48</td><td>12897</td><td>54</td><td>CL100049490_L01</td><td>scCAT_20171127_HCT_R1_1.Summary.xls</td><td>HCT</td><td>1</td><td>HCT</td></tr>\n",
"\t<tr><th scope=row>8</th><td>HCT_CL100049490_L01_22</td><td>HCT_CL100050215_L01_22</td><td>13049794</td><td>5233571</td><td> 695232</td><td>587671</td><td>585947</td><td>107482</td><td>18.34330</td><td>CL100050215_L01</td><td>⋯</td><td>3754738</td><td> 9237028</td><td>76.17</td><td>14662</td><td>60</td><td>CL100049490_L01</td><td>scCAT_20171127_HCT_R1_1.Summary.xls</td><td>HCT</td><td>1</td><td>HCT</td></tr>\n",
"\t<tr><th scope=row>9</th><td>HCT_CL100049490_L01_24</td><td>HCT_CL100050215_L01_24</td><td>19661805</td><td>6938338</td><td> 648426</td><td>234046</td><td>233199</td><td> 52978</td><td>22.71794</td><td>CL100050215_L01</td><td>⋯</td><td>4246809</td><td>10543787</td><td>78.98</td><td>12993</td><td>57</td><td>CL100049490_L01</td><td>scCAT_20171127_HCT_R1_1.Summary.xls</td><td>HCT</td><td>1</td><td>HCT</td></tr>\n",
"\t<tr><th scope=row>10</th><td>HCT_CL100049490_L01_27</td><td>HCT_CL100050215_L01_27</td><td> 9373525</td><td>3296821</td><td> 649736</td><td>180529</td><td>180050</td><td> 53782</td><td>29.87059</td><td>CL100050215_L01</td><td>⋯</td><td>3613369</td><td> 9721237</td><td>81.39</td><td>13065</td><td>55</td><td>CL100049490_L01</td><td>scCAT_20171127_HCT_R1_1.Summary.xls</td><td>HCT</td><td>1</td><td>HCT</td></tr>\n",
"\t<tr><th scope=row>11</th><td>HCT_CL100049490_L01_28</td><td>HCT_CL100050215_L01_28</td><td> 7877579</td><td>3132790</td><td> 260317</td><td>286857</td><td>285920</td><td> 54314</td><td>18.99622</td><td>CL100050215_L01</td><td>⋯</td><td>2133607</td><td> 3647949</td><td>72.48</td><td> 9794</td><td>57</td><td>CL100049490_L01</td><td>scCAT_20171127_HCT_R1_1.Summary.xls</td><td>HCT</td><td>1</td><td>HCT</td></tr>\n",
"\t<tr><th scope=row>12</th><td>HCT_CL100049490_L01_29</td><td>HCT_CL100050215_L01_29</td><td>21776712</td><td>7482894</td><td> 982492</td><td>298179</td><td>297567</td><td> 68860</td><td>23.14101</td><td>CL100050215_L01</td><td>⋯</td><td>3386812</td><td> 6009368</td><td>72.63</td><td> 9945</td><td>57</td><td>CL100049490_L01</td><td>scCAT_20171127_HCT_R1_1.Summary.xls</td><td>HCT</td><td>1</td><td>HCT</td></tr>\n",
"\t<tr><th scope=row>13</th><td>HCT_CL100049490_L01_3 </td><td>HCT_CL100050215_L01_3 </td><td> 9845825</td><td>3912150</td><td> 320557</td><td>449068</td><td>447583</td><td> 87311</td><td>19.50722</td><td>CL100050215_L01</td><td>⋯</td><td>3819552</td><td> 9908040</td><td>79.27</td><td>13267</td><td>55</td><td>CL100049490_L01</td><td>scCAT_20171127_HCT_R1_1.Summary.xls</td><td>HCT</td><td>1</td><td>HCT</td></tr>\n",
"\t<tr><th scope=row>14</th><td>HCT_CL100049490_L01_34</td><td>HCT_CL100050215_L01_34</td><td> 9534961</td><td>3634362</td><td> 457898</td><td>463221</td><td>462305</td><td>106019</td><td>22.93270</td><td>CL100050215_L01</td><td>⋯</td><td>1805290</td><td> 4509608</td><td>82.15</td><td>13167</td><td>53</td><td>CL100049490_L01</td><td>scCAT_20171127_HCT_R1_1.Summary.xls</td><td>HCT</td><td>1</td><td>HCT</td></tr>\n",
"\t<tr><th scope=row>15</th><td>HCT_CL100049490_L01_35</td><td>HCT_CL100050215_L01_35</td><td> 6673741</td><td>2472033</td><td> 439604</td><td>302037</td><td>301379</td><td> 54893</td><td>18.21394</td><td>CL100050215_L01</td><td>⋯</td><td>2080405</td><td> 3914773</td><td>73.21</td><td>10004</td><td>54</td><td>CL100049490_L01</td><td>scCAT_20171127_HCT_R1_1.Summary.xls</td><td>HCT</td><td>1</td><td>HCT</td></tr>\n",
"\t<tr><th scope=row>16</th><td>HCT_CL100049490_L01_37</td><td>HCT_CL100050215_L01_37</td><td> 6610833</td><td>2509364</td><td> 197861</td><td>134453</td><td>133994</td><td> 38849</td><td>28.99309</td><td>CL100050215_L01</td><td>⋯</td><td>2029249</td><td> 3734402</td><td>68.84</td><td>10418</td><td>54</td><td>CL100049490_L01</td><td>scCAT_20171127_HCT_R1_1.Summary.xls</td><td>HCT</td><td>1</td><td>HCT</td></tr>\n",
"\t<tr><th scope=row>17</th><td>HCT_CL100049490_L01_38</td><td>HCT_CL100050215_L01_38</td><td> 7449277</td><td>2684595</td><td> 191957</td><td>244797</td><td>244193</td><td> 51224</td><td>20.97685</td><td>CL100050215_L01</td><td>⋯</td><td>3122499</td><td> 9708945</td><td>80.37</td><td>13665</td><td>57</td><td>CL100049490_L01</td><td>scCAT_20171127_HCT_R1_1.Summary.xls</td><td>HCT</td><td>1</td><td>HCT</td></tr>\n",
"\t<tr><th scope=row>18</th><td>HCT_CL100049490_L01_39</td><td>HCT_CL100050215_L01_39</td><td> 7580988</td><td>2711849</td><td> 289509</td><td>213777</td><td>213113</td><td> 46802</td><td>21.96112</td><td>CL100050215_L01</td><td>⋯</td><td>3085234</td><td> 7780639</td><td>78.36</td><td>12123</td><td>54</td><td>CL100049490_L01</td><td>scCAT_20171127_HCT_R1_1.Summary.xls</td><td>HCT</td><td>1</td><td>HCT</td></tr>\n",
"\t<tr><th scope=row>19</th><td>HCT_CL100049490_L01_4 </td><td>HCT_CL100050215_L01_4 </td><td> 4644731</td><td>1695919</td><td> 182180</td><td>154122</td><td>153675</td><td> 42274</td><td>27.50870</td><td>CL100050215_L01</td><td>⋯</td><td>2523170</td><td> 5488992</td><td>72.42</td><td>10777</td><td>55</td><td>CL100049490_L01</td><td>scCAT_20171127_HCT_R1_1.Summary.xls</td><td>HCT</td><td>1</td><td>HCT</td></tr>\n",
"\t<tr><th scope=row>20</th><td>HCT_CL100049490_L01_44</td><td>HCT_CL100050215_L01_44</td><td> 6442136</td><td>2244575</td><td> 260036</td><td>158652</td><td>158165</td><td> 45020</td><td>28.46395</td><td>CL100050215_L01</td><td>⋯</td><td>3011676</td><td> 7234352</td><td>79.22</td><td>11113</td><td>54</td><td>CL100049490_L01</td><td>scCAT_20171127_HCT_R1_1.Summary.xls</td><td>HCT</td><td>1</td><td>HCT</td></tr>\n",
"\t<tr><th scope=row>21</th><td>HCT_CL100049490_L01_45</td><td>HCT_CL100050215_L01_45</td><td> 9616535</td><td>3538090</td><td> 291406</td><td>177936</td><td>177616</td><td> 50794</td><td>28.59765</td><td>CL100050215_L01</td><td>⋯</td><td>2649742</td><td> 5225764</td><td>74.33</td><td>10320</td><td>53</td><td>CL100049490_L01</td><td>scCAT_20171127_HCT_R1_1.Summary.xls</td><td>HCT</td><td>1</td><td>HCT</td></tr>\n",
"\t<tr><th scope=row>22</th><td>HCT_CL100049490_L01_48</td><td>HCT_CL100050215_L01_48</td><td>13395100</td><td>5147289</td><td>1223087</td><td>345127</td><td>343880</td><td> 76632</td><td>22.28452</td><td>CL100050215_L01</td><td>⋯</td><td>3566080</td><td> 8085073</td><td>75.64</td><td>14160</td><td>58</td><td>CL100049490_L01</td><td>scCAT_20171127_HCT_R1_1.Summary.xls</td><td>HCT</td><td>1</td><td>HCT</td></tr>\n",
"\t<tr><th scope=row>23</th><td>HCT_CL100049490_L01_7 </td><td>HCT_CL100050215_L01_7 </td><td> 8182994</td><td>3054987</td><td> 294601</td><td>183450</td><td>182948</td><td> 45978</td><td>25.13173</td><td>CL100050215_L01</td><td>⋯</td><td>3654687</td><td> 8885375</td><td>75.95</td><td>12536</td><td>50</td><td>CL100049490_L01</td><td>scCAT_20171127_HCT_R1_1.Summary.xls</td><td>HCT</td><td>1</td><td>HCT</td></tr>\n",
"\t<tr><th scope=row>24</th><td>HCT_CL100049490_L02_49</td><td>HCT_CL100050215_L02_49</td><td> 7330285</td><td>2522058</td><td> 371872</td><td>135905</td><td>135430</td><td> 35488</td><td>26.20394</td><td>CL100050215_L02</td><td>⋯</td><td>4689611</td><td> 3852880</td><td>68.90</td><td> 7102</td><td>58</td><td>CL100049490_L02</td><td>scCAT_20171127_HCT_R1_2.Summary.xls</td><td>HCT</td><td>1</td><td>HCT</td></tr>\n",
"\t<tr><th scope=row>25</th><td>HCT_CL100049490_L02_52</td><td>HCT_CL100050215_L02_52</td><td> 6154951</td><td>2506077</td><td> 89906</td><td>384514</td><td>383449</td><td> 58533</td><td>15.26487</td><td>CL100050215_L02</td><td>⋯</td><td>4231411</td><td> 9042554</td><td>81.07</td><td>11170</td><td>59</td><td>CL100049490_L02</td><td>scCAT_20171127_HCT_R1_2.Summary.xls</td><td>HCT</td><td>1</td><td>HCT</td></tr>\n",
"\t<tr><th scope=row>26</th><td>HCT_CL100049490_L02_53</td><td>HCT_CL100050215_L02_53</td><td> 7275464</td><td>2387383</td><td> 530103</td><td> 75812</td><td> 75507</td><td> 25532</td><td>33.81408</td><td>CL100050215_L02</td><td>⋯</td><td>2628533</td><td> 3479982</td><td>69.38</td><td> 8019</td><td>52</td><td>CL100049490_L02</td><td>scCAT_20171127_HCT_R1_2.Summary.xls</td><td>HCT</td><td>1</td><td>HCT</td></tr>\n",
"\t<tr><th scope=row>27</th><td>HCT_CL100049490_L02_54</td><td>HCT_CL100050215_L02_54</td><td> 4660386</td><td>1631143</td><td> 135612</td><td>170875</td><td>170349</td><td> 31943</td><td>18.75150</td><td>CL100050215_L02</td><td>⋯</td><td>3077367</td><td> 8593264</td><td>81.36</td><td>12976</td><td>55</td><td>CL100049490_L02</td><td>scCAT_20171127_HCT_R1_2.Summary.xls</td><td>HCT</td><td>1</td><td>HCT</td></tr>\n",
"\t<tr><th scope=row>28</th><td>HCT_CL100049490_L02_55</td><td>HCT_CL100050215_L02_55</td><td> 8714310</td><td>3391598</td><td> 128932</td><td>325917</td><td>325278</td><td> 64082</td><td>19.70069</td><td>CL100050215_L02</td><td>⋯</td><td>3606508</td><td> 8546984</td><td>80.14</td><td>11753</td><td>57</td><td>CL100049490_L02</td><td>scCAT_20171127_HCT_R1_2.Summary.xls</td><td>HCT</td><td>1</td><td>HCT</td></tr>\n",
"\t<tr><th scope=row>29</th><td>HCT_CL100049490_L02_59</td><td>HCT_CL100050215_L02_59</td><td> 6453873</td><td>2449859</td><td> 182694</td><td>210510</td><td>210035</td><td> 42802</td><td>20.37851</td><td>CL100050215_L02</td><td>⋯</td><td>3747514</td><td> 9985878</td><td>83.36</td><td>12604</td><td>57</td><td>CL100049490_L02</td><td>scCAT_20171127_HCT_R1_2.Summary.xls</td><td>HCT</td><td>1</td><td>HCT</td></tr>\n",
"\t<tr><th scope=row>30</th><td>HCT_CL100049490_L02_61</td><td>HCT_CL100050215_L02_61</td><td> 7898324</td><td>2940616</td><td> 245979</td><td>271435</td><td>270527</td><td> 48518</td><td>17.93462</td><td>CL100050215_L02</td><td>⋯</td><td>2858528</td><td> 6427675</td><td>76.20</td><td>12558</td><td>49</td><td>CL100049490_L02</td><td>scCAT_20171127_HCT_R1_2.Summary.xls</td><td>HCT</td><td>1</td><td>HCT</td></tr>\n",
"\t<tr><th scope=row>⋮</th><td>⋮</td><td>⋮</td><td>⋮</td><td>⋮</td><td>⋮</td><td>⋮</td><td>⋮</td><td>⋮</td><td>⋮</td><td>⋮</td><td>⋱</td><td>⋮</td><td>⋮</td><td>⋮</td><td>⋮</td><td>⋮</td><td>⋮</td><td>⋮</td><td>⋮</td><td>⋮</td><td>⋮</td></tr>\n",
"\t<tr><th scope=row>177</th><td>K562_CL100050926_L01_5 </td><td>K562_CL100050944_L02_5 </td><td> 1600764</td><td> 534935</td><td> 49801</td><td> 99104</td><td> 98826</td><td>37079</td><td>37.51948</td><td>CL100050944_L02</td><td>⋯</td><td>2034980</td><td>2259999</td><td>30.64</td><td> 8804</td><td>55</td><td>CL100050926_L01</td><td>scCAT_20171120_K562_R2_1.Summary.xls</td><td>K562</td><td>1</td><td>K562</td></tr>\n",
"\t<tr><th scope=row>178</th><td>K562_CL100050926_L01_6 </td><td>K562_CL100050944_L02_6 </td><td> 3102654</td><td>1176392</td><td>106066</td><td>151401</td><td>151093</td><td>50955</td><td>33.72426</td><td>CL100050944_L02</td><td>⋯</td><td>3866525</td><td>7405675</td><td>69.73</td><td>10919</td><td>53</td><td>CL100050926_L01</td><td>scCAT_20171120_K562_R2_1.Summary.xls</td><td>K562</td><td>1</td><td>K562</td></tr>\n",
"\t<tr><th scope=row>179</th><td>K562_CL100050926_L01_7 </td><td>K562_CL100050944_L02_7 </td><td> 2872871</td><td>1016501</td><td>121555</td><td>158472</td><td>157795</td><td>26973</td><td>17.09370</td><td>CL100050944_L02</td><td>⋯</td><td>2118281</td><td>3694831</td><td>54.59</td><td>10396</td><td>58</td><td>CL100050926_L01</td><td>scCAT_20171120_K562_R2_1.Summary.xls</td><td>K562</td><td>1</td><td>K562</td></tr>\n",
"\t<tr><th scope=row>180</th><td>K562_CL100050926_L01_9 </td><td>K562_CL100050944_L02_9 </td><td> 2320373</td><td> 749173</td><td> 72366</td><td>110087</td><td>109752</td><td>36472</td><td>33.23129</td><td>CL100050944_L02</td><td>⋯</td><td>1676578</td><td>3386428</td><td>60.65</td><td>10240</td><td>59</td><td>CL100050926_L01</td><td>scCAT_20171120_K562_R2_1.Summary.xls</td><td>K562</td><td>1</td><td>K562</td></tr>\n",
"\t<tr><th scope=row>181</th><td>K562_CL100050926_L02_49</td><td>K562_CL100050285_L01_49</td><td> 4617994</td><td>1759483</td><td>177312</td><td>106716</td><td>106349</td><td>38171</td><td>35.89220</td><td>CL100050285_L01</td><td>⋯</td><td>5061990</td><td>6725433</td><td>56.88</td><td>10965</td><td>57</td><td>CL100050926_L02</td><td>scCAT_20171120_K562_R2_2.Summary.xls</td><td>K562</td><td>1</td><td>K562</td></tr>\n",
"\t<tr><th scope=row>182</th><td>K562_CL100050926_L02_51</td><td>K562_CL100050285_L01_51</td><td> 1752360</td><td> 722718</td><td> 45958</td><td>157594</td><td>157210</td><td>45229</td><td>28.76980</td><td>CL100050285_L01</td><td>⋯</td><td>2425740</td><td>3455377</td><td>66.99</td><td> 9516</td><td>57</td><td>CL100050926_L02</td><td>scCAT_20171120_K562_R2_2.Summary.xls</td><td>K562</td><td>1</td><td>K562</td></tr>\n",
"\t<tr><th scope=row>183</th><td>K562_CL100050926_L02_52</td><td>K562_CL100050285_L01_52</td><td> 3143374</td><td>1270458</td><td>105869</td><td>159532</td><td>159171</td><td>48792</td><td>30.65383</td><td>CL100050285_L01</td><td>⋯</td><td>2424105</td><td>4833142</td><td>67.11</td><td>10712</td><td>58</td><td>CL100050926_L02</td><td>scCAT_20171120_K562_R2_2.Summary.xls</td><td>K562</td><td>1</td><td>K562</td></tr>\n",
"\t<tr><th scope=row>184</th><td>K562_CL100050926_L02_53</td><td>K562_CL100050285_L01_53</td><td> 3696691</td><td>1486033</td><td>159804</td><td>138489</td><td>138140</td><td>47693</td><td>34.52512</td><td>CL100050285_L01</td><td>⋯</td><td>2885660</td><td>6129342</td><td>62.69</td><td>10852</td><td>56</td><td>CL100050926_L02</td><td>scCAT_20171120_K562_R2_2.Summary.xls</td><td>K562</td><td>1</td><td>K562</td></tr>\n",
"\t<tr><th scope=row>185</th><td>K562_CL100050926_L02_55</td><td>K562_CL100050285_L01_55</td><td> 2467380</td><td> 936918</td><td> 94401</td><td>110453</td><td>110105</td><td>37943</td><td>34.46074</td><td>CL100050285_L01</td><td>⋯</td><td>2450006</td><td>3894558</td><td>60.44</td><td>10389</td><td>61</td><td>CL100050926_L02</td><td>scCAT_20171120_K562_R2_2.Summary.xls</td><td>K562</td><td>1</td><td>K562</td></tr>\n",
"\t<tr><th scope=row>186</th><td>K562_CL100050926_L02_57</td><td>K562_CL100050285_L01_57</td><td> 3839823</td><td>1560427</td><td> 93128</td><td>173277</td><td>172876</td><td>58197</td><td>33.66401</td><td>CL100050285_L01</td><td>⋯</td><td>2829703</td><td>5570123</td><td>62.79</td><td>11820</td><td>55</td><td>CL100050926_L02</td><td>scCAT_20171120_K562_R2_2.Summary.xls</td><td>K562</td><td>1</td><td>K562</td></tr>\n",
"\t<tr><th scope=row>187</th><td>K562_CL100050926_L02_63</td><td>K562_CL100050285_L01_63</td><td> 5971755</td><td>2340394</td><td>239230</td><td>156131</td><td>155671</td><td>48646</td><td>31.24924</td><td>CL100050285_L01</td><td>⋯</td><td>2258669</td><td>3804096</td><td>53.12</td><td>10746</td><td>56</td><td>CL100050926_L02</td><td>scCAT_20171120_K562_R2_2.Summary.xls</td><td>K562</td><td>1</td><td>K562</td></tr>\n",
"\t<tr><th scope=row>188</th><td>K562_CL100050926_L02_66</td><td>K562_CL100050285_L01_66</td><td> 3232764</td><td>1311890</td><td>131085</td><td>190151</td><td>189901</td><td>54506</td><td>28.70232</td><td>CL100050285_L01</td><td>⋯</td><td>1882807</td><td>3366743</td><td>55.90</td><td> 9868</td><td>55</td><td>CL100050926_L02</td><td>scCAT_20171120_K562_R2_2.Summary.xls</td><td>K562</td><td>1</td><td>K562</td></tr>\n",
"\t<tr><th scope=row>189</th><td>K562_CL100050926_L02_67</td><td>K562_CL100050285_L01_67</td><td> 1398702</td><td> 560373</td><td> 51736</td><td>131049</td><td>130719</td><td>43734</td><td>33.45650</td><td>CL100050285_L01</td><td>⋯</td><td> 795704</td><td>1203928</td><td>46.79</td><td> 9645</td><td>52</td><td>CL100050926_L02</td><td>scCAT_20171120_K562_R2_2.Summary.xls</td><td>K562</td><td>1</td><td>K562</td></tr>\n",
"\t<tr><th scope=row>190</th><td>K562_CL100050926_L02_70</td><td>K562_CL100050285_L01_70</td><td> 5175465</td><td>2055536</td><td>230859</td><td>141992</td><td>141665</td><td>51339</td><td>36.23972</td><td>CL100050285_L01</td><td>⋯</td><td> 963155</td><td>1690485</td><td>43.09</td><td>10437</td><td>58</td><td>CL100050926_L02</td><td>scCAT_20171120_K562_R2_2.Summary.xls</td><td>K562</td><td>1</td><td>K562</td></tr>\n",
"\t<tr><th scope=row>191</th><td>K562_CL100050926_L02_71</td><td>K562_CL100050285_L01_71</td><td> 3134194</td><td>1219812</td><td>124100</td><td>143777</td><td>143394</td><td>45830</td><td>31.96089</td><td>CL100050285_L01</td><td>⋯</td><td>1601575</td><td>2276337</td><td>48.18</td><td> 9736</td><td>55</td><td>CL100050926_L02</td><td>scCAT_20171120_K562_R2_2.Summary.xls</td><td>K562</td><td>1</td><td>K562</td></tr>\n",
"\t<tr><th scope=row>192</th><td>K562_CL100050926_L02_72</td><td>K562_CL100050285_L01_72</td><td> 9477997</td><td>3610865</td><td>430052</td><td>192794</td><td>192247</td><td>55831</td><td>29.04129</td><td>CL100050285_L01</td><td>⋯</td><td> 0</td><td> 0</td><td> 0.00</td><td>10335</td><td> 6</td><td>CL100050926_L02</td><td>scCAT_20171120_K562_R2_2.Summary.xls</td><td>K562</td><td>1</td><td>K562</td></tr>\n",
"\t<tr><th scope=row>193</th><td>K562_CL100050926_L02_73</td><td>K562_CL100050285_L01_73</td><td> 9256517</td><td>3844102</td><td>218022</td><td>231168</td><td>230509</td><td>57949</td><td>25.13958</td><td>CL100050285_L01</td><td>⋯</td><td>3836767</td><td>6047853</td><td>58.54</td><td>10823</td><td>57</td><td>CL100050926_L02</td><td>scCAT_20171120_K562_R2_2.Summary.xls</td><td>K562</td><td>1</td><td>K562</td></tr>\n",
"\t<tr><th scope=row>194</th><td>K562_CL100050926_L02_74</td><td>K562_CL100050285_L01_74</td><td>13613679</td><td>5575447</td><td>476813</td><td>256679</td><td>255969</td><td>71085</td><td>27.77094</td><td>CL100050285_L01</td><td>⋯</td><td>3446285</td><td>7508041</td><td>65.27</td><td>11285</td><td>55</td><td>CL100050926_L02</td><td>scCAT_20171120_K562_R2_2.Summary.xls</td><td>K562</td><td>1</td><td>K562</td></tr>\n",
"\t<tr><th scope=row>195</th><td>K562_CL100050926_L02_75</td><td>K562_CL100050285_L01_75</td><td> 5457754</td><td>2165583</td><td>264092</td><td>198403</td><td>197835</td><td>58877</td><td>29.76066</td><td>CL100050285_L01</td><td>⋯</td><td>1685777</td><td>3164631</td><td>61.12</td><td>11290</td><td>55</td><td>CL100050926_L02</td><td>scCAT_20171120_K562_R2_2.Summary.xls</td><td>K562</td><td>1</td><td>K562</td></tr>\n",
"\t<tr><th scope=row>196</th><td>K562_CL100050926_L02_76</td><td>K562_CL100050285_L01_76</td><td> 6402352</td><td>2672672</td><td>174744</td><td>278570</td><td>277744</td><td>64022</td><td>23.05072</td><td>CL100050285_L01</td><td>⋯</td><td>2316479</td><td>3955022</td><td>54.84</td><td> 9333</td><td>54</td><td>CL100050926_L02</td><td>scCAT_20171120_K562_R2_2.Summary.xls</td><td>K562</td><td>1</td><td>K562</td></tr>\n",
"\t<tr><th scope=row>197</th><td>K562_CL100050926_L02_79</td><td>K562_CL100050285_L01_79</td><td>12761304</td><td>4866387</td><td>745518</td><td>135465</td><td>135050</td><td>33564</td><td>24.85302</td><td>CL100050285_L01</td><td>⋯</td><td>1147616</td><td>1990981</td><td>52.02</td><td>10771</td><td>58</td><td>CL100050926_L02</td><td>scCAT_20171120_K562_R2_2.Summary.xls</td><td>K562</td><td>1</td><td>K562</td></tr>\n",
"\t<tr><th scope=row>198</th><td>K562_CL100050926_L02_81</td><td>K562_CL100050285_L01_81</td><td> 7185921</td><td>2710241</td><td>275639</td><td>155091</td><td>154689</td><td>49245</td><td>31.83484</td><td>CL100050285_L01</td><td>⋯</td><td>1141739</td><td>1753633</td><td>46.39</td><td> 8771</td><td>55</td><td>CL100050926_L02</td><td>scCAT_20171120_K562_R2_2.Summary.xls</td><td>K562</td><td>1</td><td>K562</td></tr>\n",
"\t<tr><th scope=row>199</th><td>K562_CL100050926_L02_83</td><td>K562_CL100050285_L01_83</td><td> 6844487</td><td>2554449</td><td>258591</td><td>114066</td><td>113722</td><td>41588</td><td>36.56988</td><td>CL100050285_L01</td><td>⋯</td><td>1279759</td><td>1896822</td><td>50.18</td><td> 9294</td><td>58</td><td>CL100050926_L02</td><td>scCAT_20171120_K562_R2_2.Summary.xls</td><td>K562</td><td>1</td><td>K562</td></tr>\n",
"\t<tr><th scope=row>200</th><td>K562_CL100050926_L02_84</td><td>K562_CL100050285_L01_84</td><td> 9489860</td><td>3570321</td><td>477264</td><td>117326</td><td>116964</td><td>40837</td><td>34.91416</td><td>CL100050285_L01</td><td>⋯</td><td> 696603</td><td> 896722</td><td>45.57</td><td> 8113</td><td>56</td><td>CL100050926_L02</td><td>scCAT_20171120_K562_R2_2.Summary.xls</td><td>K562</td><td>1</td><td>K562</td></tr>\n",
"\t<tr><th scope=row>201</th><td>K562_CL100050926_L02_85</td><td>K562_CL100050285_L01_85</td><td> 8190020</td><td>3442034</td><td>203888</td><td>256833</td><td>256433</td><td>68799</td><td>26.82923</td><td>CL100050285_L01</td><td>⋯</td><td> 719175</td><td>1386223</td><td>53.95</td><td> 9863</td><td>54</td><td>CL100050926_L02</td><td>scCAT_20171120_K562_R2_2.Summary.xls</td><td>K562</td><td>1</td><td>K562</td></tr>\n",
"\t<tr><th scope=row>202</th><td>K562_CL100050926_L02_86</td><td>K562_CL100050285_L01_86</td><td> 6389431</td><td>2344510</td><td>348776</td><td>147524</td><td>147062</td><td>45558</td><td>30.97877</td><td>CL100050285_L01</td><td>⋯</td><td> 0</td><td> 0</td><td> 0.00</td><td> 8320</td><td>15</td><td>CL100050926_L02</td><td>scCAT_20171120_K562_R2_2.Summary.xls</td><td>K562</td><td>1</td><td>K562</td></tr>\n",
"\t<tr><th scope=row>203</th><td>K562_CL100050926_L02_87</td><td>K562_CL100050285_L01_87</td><td> 7824263</td><td>3202200</td><td>403837</td><td>343968</td><td>342965</td><td>71415</td><td>20.82282</td><td>CL100050285_L01</td><td>⋯</td><td>1219763</td><td>2037511</td><td>53.42</td><td>10581</td><td>53</td><td>CL100050926_L02</td><td>scCAT_20171120_K562_R2_2.Summary.xls</td><td>K562</td><td>1</td><td>K562</td></tr>\n",
"\t<tr><th scope=row>204</th><td>K562_CL100050926_L02_88</td><td>K562_CL100050285_L01_88</td><td> 8856414</td><td>3596359</td><td>293302</td><td>242555</td><td>242173</td><td>67996</td><td>28.07745</td><td>CL100050285_L01</td><td>⋯</td><td>1536600</td><td>2698514</td><td>52.65</td><td>10177</td><td>59</td><td>CL100050926_L02</td><td>scCAT_20171120_K562_R2_2.Summary.xls</td><td>K562</td><td>1</td><td>K562</td></tr>\n",
"\t<tr><th scope=row>205</th><td>K562_CL100050926_L02_92</td><td>K562_CL100050285_L01_92</td><td> 8844021</td><td>3415434</td><td>317032</td><td>162210</td><td>161744</td><td>50794</td><td>31.40395</td><td>CL100050285_L01</td><td>⋯</td><td>1711834</td><td>3049732</td><td>53.16</td><td>10684</td><td>53</td><td>CL100050926_L02</td><td>scCAT_20171120_K562_R2_2.Summary.xls</td><td>K562</td><td>1</td><td>K562</td></tr>\n",
"\t<tr><th scope=row>206</th><td>K562_CL100050926_L02_93</td><td>K562_CL100050285_L01_93</td><td> 8808033</td><td>3395271</td><td>361735</td><td>167314</td><td>166906</td><td>56941</td><td>34.11561</td><td>CL100050285_L01</td><td>⋯</td><td>1094139</td><td>1938947</td><td>56.24</td><td> 9417</td><td>57</td><td>CL100050926_L02</td><td>scCAT_20171120_K562_R2_2.Summary.xls</td><td>K562</td><td>1</td><td>K562</td></tr>\n",
"</tbody>\n",
"</table>\n"
],
"text/latex": [
"A data.frame: 206 × 32\n",
"\\begin{tabular}{r|lllllllllllllllllllll}\n",
" & sample.rna & sample.atac & Total.Read.Pairs & Mapped.read.pairs & chrM.read.pairs & Unique.Flagments & Usable.Flagments & Flagments.in.peaks & Rate.of.Flagments.in.peaks... & lane.atac & ⋯ & unique.mapped.gene. & Multiple.mapped.gene. & Gene.mapped.rate... & Gene.number.FPKM..1. & ERCC.number & lane.rna.y & batch.rna.y & celltype & quality.pass & Type\\\\\n",
" & <chr> & <chr> & <int> & <int> & <int> & <int> & <int> & <int> & <dbl> & <chr> & ⋯ & <int> & <int> & <dbl> & <int> & <int> & <chr> & <chr> & <chr> & <int> & <chr>\\\\\n",
"\\hline\n",
"\t1 & HCT\\_CL100049490\\_L01\\_10 & HCT\\_CL100050215\\_L01\\_10 & 5652832 & 2142410 & 308401 & 288574 & 287830 & 43823 & 15.22531 & CL100050215\\_L01 & ⋯ & 2428210 & 6764665 & 79.13 & 12728 & 57 & CL100049490\\_L01 & scCAT\\_20171127\\_HCT\\_R1\\_1.Summary.xls & HCT & 1 & HCT\\\\\n",
"\t2 & HCT\\_CL100049490\\_L01\\_14 & HCT\\_CL100050215\\_L01\\_14 & 7927709 & 2420888 & 227655 & 168073 & 167591 & 47288 & 28.21631 & CL100050215\\_L01 & ⋯ & 2454685 & 6494370 & 74.84 & 12813 & 55 & CL100049490\\_L01 & scCAT\\_20171127\\_HCT\\_R1\\_1.Summary.xls & HCT & 1 & HCT\\\\\n",
"\t3 & HCT\\_CL100049490\\_L01\\_15 & HCT\\_CL100050215\\_L01\\_15 & 8299477 & 3220612 & 261155 & 295228 & 294344 & 60415 & 20.52530 & CL100050215\\_L01 & ⋯ & 3394474 & 9403818 & 77.33 & 13510 & 55 & CL100049490\\_L01 & scCAT\\_20171127\\_HCT\\_R1\\_1.Summary.xls & HCT & 1 & HCT\\\\\n",
"\t4 & HCT\\_CL100049490\\_L01\\_16 & HCT\\_CL100050215\\_L01\\_16 & 7949453 & 2976918 & 181194 & 203974 & 203278 & 46737 & 22.99167 & CL100050215\\_L01 & ⋯ & 3689905 & 8437816 & 76.62 & 11754 & 55 & CL100049490\\_L01 & scCAT\\_20171127\\_HCT\\_R1\\_1.Summary.xls & HCT & 1 & HCT\\\\\n",
"\t5 & HCT\\_CL100049490\\_L01\\_19 & HCT\\_CL100050215\\_L01\\_19 & 11619678 & 4256602 & 461415 & 440250 & 439264 & 92790 & 21.12397 & CL100050215\\_L01 & ⋯ & 2606176 & 6962609 & 79.86 & 13875 & 55 & CL100049490\\_L01 & scCAT\\_20171127\\_HCT\\_R1\\_1.Summary.xls & HCT & 1 & HCT\\\\\n",
"\t6 & HCT\\_CL100049490\\_L01\\_2 & HCT\\_CL100050215\\_L01\\_2 & 15639248 & 6190197 & 491529 & 672421 & 670961 & 116239 & 17.32426 & CL100050215\\_L01 & ⋯ & 4587203 & 11397784 & 78.55 & 13526 & 59 & CL100049490\\_L01 & scCAT\\_20171127\\_HCT\\_R1\\_1.Summary.xls & HCT & 1 & HCT\\\\\n",
"\t7 & HCT\\_CL100049490\\_L01\\_21 & HCT\\_CL100050215\\_L01\\_21 & 12207598 & 4472701 & 316767 & 310128 & 309360 & 55739 & 18.01752 & CL100050215\\_L01 & ⋯ & 3625588 & 10465020 & 81.48 & 12897 & 54 & CL100049490\\_L01 & scCAT\\_20171127\\_HCT\\_R1\\_1.Summary.xls & HCT & 1 & HCT\\\\\n",
"\t8 & HCT\\_CL100049490\\_L01\\_22 & HCT\\_CL100050215\\_L01\\_22 & 13049794 & 5233571 & 695232 & 587671 & 585947 & 107482 & 18.34330 & CL100050215\\_L01 & ⋯ & 3754738 & 9237028 & 76.17 & 14662 & 60 & CL100049490\\_L01 & scCAT\\_20171127\\_HCT\\_R1\\_1.Summary.xls & HCT & 1 & HCT\\\\\n",
"\t9 & HCT\\_CL100049490\\_L01\\_24 & HCT\\_CL100050215\\_L01\\_24 & 19661805 & 6938338 & 648426 & 234046 & 233199 & 52978 & 22.71794 & CL100050215\\_L01 & ⋯ & 4246809 & 10543787 & 78.98 & 12993 & 57 & CL100049490\\_L01 & scCAT\\_20171127\\_HCT\\_R1\\_1.Summary.xls & HCT & 1 & HCT\\\\\n",
"\t10 & HCT\\_CL100049490\\_L01\\_27 & HCT\\_CL100050215\\_L01\\_27 & 9373525 & 3296821 & 649736 & 180529 & 180050 & 53782 & 29.87059 & CL100050215\\_L01 & ⋯ & 3613369 & 9721237 & 81.39 & 13065 & 55 & CL100049490\\_L01 & scCAT\\_20171127\\_HCT\\_R1\\_1.Summary.xls & HCT & 1 & HCT\\\\\n",
"\t11 & HCT\\_CL100049490\\_L01\\_28 & HCT\\_CL100050215\\_L01\\_28 & 7877579 & 3132790 & 260317 & 286857 & 285920 & 54314 & 18.99622 & CL100050215\\_L01 & ⋯ & 2133607 & 3647949 & 72.48 & 9794 & 57 & CL100049490\\_L01 & scCAT\\_20171127\\_HCT\\_R1\\_1.Summary.xls & HCT & 1 & HCT\\\\\n",
"\t12 & HCT\\_CL100049490\\_L01\\_29 & HCT\\_CL100050215\\_L01\\_29 & 21776712 & 7482894 & 982492 & 298179 & 297567 & 68860 & 23.14101 & CL100050215\\_L01 & ⋯ & 3386812 & 6009368 & 72.63 & 9945 & 57 & CL100049490\\_L01 & scCAT\\_20171127\\_HCT\\_R1\\_1.Summary.xls & HCT & 1 & HCT\\\\\n",
"\t13 & HCT\\_CL100049490\\_L01\\_3 & HCT\\_CL100050215\\_L01\\_3 & 9845825 & 3912150 & 320557 & 449068 & 447583 & 87311 & 19.50722 & CL100050215\\_L01 & ⋯ & 3819552 & 9908040 & 79.27 & 13267 & 55 & CL100049490\\_L01 & scCAT\\_20171127\\_HCT\\_R1\\_1.Summary.xls & HCT & 1 & HCT\\\\\n",
"\t14 & HCT\\_CL100049490\\_L01\\_34 & HCT\\_CL100050215\\_L01\\_34 & 9534961 & 3634362 & 457898 & 463221 & 462305 & 106019 & 22.93270 & CL100050215\\_L01 & ⋯ & 1805290 & 4509608 & 82.15 & 13167 & 53 & CL100049490\\_L01 & scCAT\\_20171127\\_HCT\\_R1\\_1.Summary.xls & HCT & 1 & HCT\\\\\n",
"\t15 & HCT\\_CL100049490\\_L01\\_35 & HCT\\_CL100050215\\_L01\\_35 & 6673741 & 2472033 & 439604 & 302037 & 301379 & 54893 & 18.21394 & CL100050215\\_L01 & ⋯ & 2080405 & 3914773 & 73.21 & 10004 & 54 & CL100049490\\_L01 & scCAT\\_20171127\\_HCT\\_R1\\_1.Summary.xls & HCT & 1 & HCT\\\\\n",
"\t16 & HCT\\_CL100049490\\_L01\\_37 & HCT\\_CL100050215\\_L01\\_37 & 6610833 & 2509364 & 197861 & 134453 & 133994 & 38849 & 28.99309 & CL100050215\\_L01 & ⋯ & 2029249 & 3734402 & 68.84 & 10418 & 54 & CL100049490\\_L01 & scCAT\\_20171127\\_HCT\\_R1\\_1.Summary.xls & HCT & 1 & HCT\\\\\n",
"\t17 & HCT\\_CL100049490\\_L01\\_38 & HCT\\_CL100050215\\_L01\\_38 & 7449277 & 2684595 & 191957 & 244797 & 244193 & 51224 & 20.97685 & CL100050215\\_L01 & ⋯ & 3122499 & 9708945 & 80.37 & 13665 & 57 & CL100049490\\_L01 & scCAT\\_20171127\\_HCT\\_R1\\_1.Summary.xls & HCT & 1 & HCT\\\\\n",
"\t18 & HCT\\_CL100049490\\_L01\\_39 & HCT\\_CL100050215\\_L01\\_39 & 7580988 & 2711849 & 289509 & 213777 & 213113 & 46802 & 21.96112 & CL100050215\\_L01 & ⋯ & 3085234 & 7780639 & 78.36 & 12123 & 54 & CL100049490\\_L01 & scCAT\\_20171127\\_HCT\\_R1\\_1.Summary.xls & HCT & 1 & HCT\\\\\n",
"\t19 & HCT\\_CL100049490\\_L01\\_4 & HCT\\_CL100050215\\_L01\\_4 & 4644731 & 1695919 & 182180 & 154122 & 153675 & 42274 & 27.50870 & CL100050215\\_L01 & ⋯ & 2523170 & 5488992 & 72.42 & 10777 & 55 & CL100049490\\_L01 & scCAT\\_20171127\\_HCT\\_R1\\_1.Summary.xls & HCT & 1 & HCT\\\\\n",
"\t20 & HCT\\_CL100049490\\_L01\\_44 & HCT\\_CL100050215\\_L01\\_44 & 6442136 & 2244575 & 260036 & 158652 & 158165 & 45020 & 28.46395 & CL100050215\\_L01 & ⋯ & 3011676 & 7234352 & 79.22 & 11113 & 54 & CL100049490\\_L01 & scCAT\\_20171127\\_HCT\\_R1\\_1.Summary.xls & HCT & 1 & HCT\\\\\n",
"\t21 & HCT\\_CL100049490\\_L01\\_45 & HCT\\_CL100050215\\_L01\\_45 & 9616535 & 3538090 & 291406 & 177936 & 177616 & 50794 & 28.59765 & CL100050215\\_L01 & ⋯ & 2649742 & 5225764 & 74.33 & 10320 & 53 & CL100049490\\_L01 & scCAT\\_20171127\\_HCT\\_R1\\_1.Summary.xls & HCT & 1 & HCT\\\\\n",
"\t22 & HCT\\_CL100049490\\_L01\\_48 & HCT\\_CL100050215\\_L01\\_48 & 13395100 & 5147289 & 1223087 & 345127 & 343880 & 76632 & 22.28452 & CL100050215\\_L01 & ⋯ & 3566080 & 8085073 & 75.64 & 14160 & 58 & CL100049490\\_L01 & scCAT\\_20171127\\_HCT\\_R1\\_1.Summary.xls & HCT & 1 & HCT\\\\\n",
"\t23 & HCT\\_CL100049490\\_L01\\_7 & HCT\\_CL100050215\\_L01\\_7 & 8182994 & 3054987 & 294601 & 183450 & 182948 & 45978 & 25.13173 & CL100050215\\_L01 & ⋯ & 3654687 & 8885375 & 75.95 & 12536 & 50 & CL100049490\\_L01 & scCAT\\_20171127\\_HCT\\_R1\\_1.Summary.xls & HCT & 1 & HCT\\\\\n",
"\t24 & HCT\\_CL100049490\\_L02\\_49 & HCT\\_CL100050215\\_L02\\_49 & 7330285 & 2522058 & 371872 & 135905 & 135430 & 35488 & 26.20394 & CL100050215\\_L02 & ⋯ & 4689611 & 3852880 & 68.90 & 7102 & 58 & CL100049490\\_L02 & scCAT\\_20171127\\_HCT\\_R1\\_2.Summary.xls & HCT & 1 & HCT\\\\\n",
"\t25 & HCT\\_CL100049490\\_L02\\_52 & HCT\\_CL100050215\\_L02\\_52 & 6154951 & 2506077 & 89906 & 384514 & 383449 & 58533 & 15.26487 & CL100050215\\_L02 & ⋯ & 4231411 & 9042554 & 81.07 & 11170 & 59 & CL100049490\\_L02 & scCAT\\_20171127\\_HCT\\_R1\\_2.Summary.xls & HCT & 1 & HCT\\\\\n",
"\t26 & HCT\\_CL100049490\\_L02\\_53 & HCT\\_CL100050215\\_L02\\_53 & 7275464 & 2387383 & 530103 & 75812 & 75507 & 25532 & 33.81408 & CL100050215\\_L02 & ⋯ & 2628533 & 3479982 & 69.38 & 8019 & 52 & CL100049490\\_L02 & scCAT\\_20171127\\_HCT\\_R1\\_2.Summary.xls & HCT & 1 & HCT\\\\\n",
"\t27 & HCT\\_CL100049490\\_L02\\_54 & HCT\\_CL100050215\\_L02\\_54 & 4660386 & 1631143 & 135612 & 170875 & 170349 & 31943 & 18.75150 & CL100050215\\_L02 & ⋯ & 3077367 & 8593264 & 81.36 & 12976 & 55 & CL100049490\\_L02 & scCAT\\_20171127\\_HCT\\_R1\\_2.Summary.xls & HCT & 1 & HCT\\\\\n",
"\t28 & HCT\\_CL100049490\\_L02\\_55 & HCT\\_CL100050215\\_L02\\_55 & 8714310 & 3391598 & 128932 & 325917 & 325278 & 64082 & 19.70069 & CL100050215\\_L02 & ⋯ & 3606508 & 8546984 & 80.14 & 11753 & 57 & CL100049490\\_L02 & scCAT\\_20171127\\_HCT\\_R1\\_2.Summary.xls & HCT & 1 & HCT\\\\\n",
"\t29 & HCT\\_CL100049490\\_L02\\_59 & HCT\\_CL100050215\\_L02\\_59 & 6453873 & 2449859 & 182694 & 210510 & 210035 & 42802 & 20.37851 & CL100050215\\_L02 & ⋯ & 3747514 & 9985878 & 83.36 & 12604 & 57 & CL100049490\\_L02 & scCAT\\_20171127\\_HCT\\_R1\\_2.Summary.xls & HCT & 1 & HCT\\\\\n",
"\t30 & HCT\\_CL100049490\\_L02\\_61 & HCT\\_CL100050215\\_L02\\_61 & 7898324 & 2940616 & 245979 & 271435 & 270527 & 48518 & 17.93462 & CL100050215\\_L02 & ⋯ & 2858528 & 6427675 & 76.20 & 12558 & 49 & CL100049490\\_L02 & scCAT\\_20171127\\_HCT\\_R1\\_2.Summary.xls & HCT & 1 & HCT\\\\\n",
"\t⋮ & ⋮ & ⋮ & ⋮ & ⋮ & ⋮ & ⋮ & ⋮ & ⋮ & ⋮ & ⋮ & ⋱ & ⋮ & ⋮ & ⋮ & ⋮ & ⋮ & ⋮ & ⋮ & ⋮ & ⋮ & ⋮\\\\\n",
"\t177 & K562\\_CL100050926\\_L01\\_5 & K562\\_CL100050944\\_L02\\_5 & 1600764 & 534935 & 49801 & 99104 & 98826 & 37079 & 37.51948 & CL100050944\\_L02 & ⋯ & 2034980 & 2259999 & 30.64 & 8804 & 55 & CL100050926\\_L01 & scCAT\\_20171120\\_K562\\_R2\\_1.Summary.xls & K562 & 1 & K562\\\\\n",
"\t178 & K562\\_CL100050926\\_L01\\_6 & K562\\_CL100050944\\_L02\\_6 & 3102654 & 1176392 & 106066 & 151401 & 151093 & 50955 & 33.72426 & CL100050944\\_L02 & ⋯ & 3866525 & 7405675 & 69.73 & 10919 & 53 & CL100050926\\_L01 & scCAT\\_20171120\\_K562\\_R2\\_1.Summary.xls & K562 & 1 & K562\\\\\n",
"\t179 & K562\\_CL100050926\\_L01\\_7 & K562\\_CL100050944\\_L02\\_7 & 2872871 & 1016501 & 121555 & 158472 & 157795 & 26973 & 17.09370 & CL100050944\\_L02 & ⋯ & 2118281 & 3694831 & 54.59 & 10396 & 58 & CL100050926\\_L01 & scCAT\\_20171120\\_K562\\_R2\\_1.Summary.xls & K562 & 1 & K562\\\\\n",
"\t180 & K562\\_CL100050926\\_L01\\_9 & K562\\_CL100050944\\_L02\\_9 & 2320373 & 749173 & 72366 & 110087 & 109752 & 36472 & 33.23129 & CL100050944\\_L02 & ⋯ & 1676578 & 3386428 & 60.65 & 10240 & 59 & CL100050926\\_L01 & scCAT\\_20171120\\_K562\\_R2\\_1.Summary.xls & K562 & 1 & K562\\\\\n",
"\t181 & K562\\_CL100050926\\_L02\\_49 & K562\\_CL100050285\\_L01\\_49 & 4617994 & 1759483 & 177312 & 106716 & 106349 & 38171 & 35.89220 & CL100050285\\_L01 & ⋯ & 5061990 & 6725433 & 56.88 & 10965 & 57 & CL100050926\\_L02 & scCAT\\_20171120\\_K562\\_R2\\_2.Summary.xls & K562 & 1 & K562\\\\\n",
"\t182 & K562\\_CL100050926\\_L02\\_51 & K562\\_CL100050285\\_L01\\_51 & 1752360 & 722718 & 45958 & 157594 & 157210 & 45229 & 28.76980 & CL100050285\\_L01 & ⋯ & 2425740 & 3455377 & 66.99 & 9516 & 57 & CL100050926\\_L02 & scCAT\\_20171120\\_K562\\_R2\\_2.Summary.xls & K562 & 1 & K562\\\\\n",
"\t183 & K562\\_CL100050926\\_L02\\_52 & K562\\_CL100050285\\_L01\\_52 & 3143374 & 1270458 & 105869 & 159532 & 159171 & 48792 & 30.65383 & CL100050285\\_L01 & ⋯ & 2424105 & 4833142 & 67.11 & 10712 & 58 & CL100050926\\_L02 & scCAT\\_20171120\\_K562\\_R2\\_2.Summary.xls & K562 & 1 & K562\\\\\n",
"\t184 & K562\\_CL100050926\\_L02\\_53 & K562\\_CL100050285\\_L01\\_53 & 3696691 & 1486033 & 159804 & 138489 & 138140 & 47693 & 34.52512 & CL100050285\\_L01 & ⋯ & 2885660 & 6129342 & 62.69 & 10852 & 56 & CL100050926\\_L02 & scCAT\\_20171120\\_K562\\_R2\\_2.Summary.xls & K562 & 1 & K562\\\\\n",
"\t185 & K562\\_CL100050926\\_L02\\_55 & K562\\_CL100050285\\_L01\\_55 & 2467380 & 936918 & 94401 & 110453 & 110105 & 37943 & 34.46074 & CL100050285\\_L01 & ⋯ & 2450006 & 3894558 & 60.44 & 10389 & 61 & CL100050926\\_L02 & scCAT\\_20171120\\_K562\\_R2\\_2.Summary.xls & K562 & 1 & K562\\\\\n",
"\t186 & K562\\_CL100050926\\_L02\\_57 & K562\\_CL100050285\\_L01\\_57 & 3839823 & 1560427 & 93128 & 173277 & 172876 & 58197 & 33.66401 & CL100050285\\_L01 & ⋯ & 2829703 & 5570123 & 62.79 & 11820 & 55 & CL100050926\\_L02 & scCAT\\_20171120\\_K562\\_R2\\_2.Summary.xls & K562 & 1 & K562\\\\\n",
"\t187 & K562\\_CL100050926\\_L02\\_63 & K562\\_CL100050285\\_L01\\_63 & 5971755 & 2340394 & 239230 & 156131 & 155671 & 48646 & 31.24924 & CL100050285\\_L01 & ⋯ & 2258669 & 3804096 & 53.12 & 10746 & 56 & CL100050926\\_L02 & scCAT\\_20171120\\_K562\\_R2\\_2.Summary.xls & K562 & 1 & K562\\\\\n",
"\t188 & K562\\_CL100050926\\_L02\\_66 & K562\\_CL100050285\\_L01\\_66 & 3232764 & 1311890 & 131085 & 190151 & 189901 & 54506 & 28.70232 & CL100050285\\_L01 & ⋯ & 1882807 & 3366743 & 55.90 & 9868 & 55 & CL100050926\\_L02 & scCAT\\_20171120\\_K562\\_R2\\_2.Summary.xls & K562 & 1 & K562\\\\\n",
"\t189 & K562\\_CL100050926\\_L02\\_67 & K562\\_CL100050285\\_L01\\_67 & 1398702 & 560373 & 51736 & 131049 & 130719 & 43734 & 33.45650 & CL100050285\\_L01 & ⋯ & 795704 & 1203928 & 46.79 & 9645 & 52 & CL100050926\\_L02 & scCAT\\_20171120\\_K562\\_R2\\_2.Summary.xls & K562 & 1 & K562\\\\\n",
"\t190 & K562\\_CL100050926\\_L02\\_70 & K562\\_CL100050285\\_L01\\_70 & 5175465 & 2055536 & 230859 & 141992 & 141665 & 51339 & 36.23972 & CL100050285\\_L01 & ⋯ & 963155 & 1690485 & 43.09 & 10437 & 58 & CL100050926\\_L02 & scCAT\\_20171120\\_K562\\_R2\\_2.Summary.xls & K562 & 1 & K562\\\\\n",
"\t191 & K562\\_CL100050926\\_L02\\_71 & K562\\_CL100050285\\_L01\\_71 & 3134194 & 1219812 & 124100 & 143777 & 143394 & 45830 & 31.96089 & CL100050285\\_L01 & ⋯ & 1601575 & 2276337 & 48.18 & 9736 & 55 & CL100050926\\_L02 & scCAT\\_20171120\\_K562\\_R2\\_2.Summary.xls & K562 & 1 & K562\\\\\n",
"\t192 & K562\\_CL100050926\\_L02\\_72 & K562\\_CL100050285\\_L01\\_72 & 9477997 & 3610865 & 430052 & 192794 & 192247 & 55831 & 29.04129 & CL100050285\\_L01 & ⋯ & 0 & 0 & 0.00 & 10335 & 6 & CL100050926\\_L02 & scCAT\\_20171120\\_K562\\_R2\\_2.Summary.xls & K562 & 1 & K562\\\\\n",
"\t193 & K562\\_CL100050926\\_L02\\_73 & K562\\_CL100050285\\_L01\\_73 & 9256517 & 3844102 & 218022 & 231168 & 230509 & 57949 & 25.13958 & CL100050285\\_L01 & ⋯ & 3836767 & 6047853 & 58.54 & 10823 & 57 & CL100050926\\_L02 & scCAT\\_20171120\\_K562\\_R2\\_2.Summary.xls & K562 & 1 & K562\\\\\n",
"\t194 & K562\\_CL100050926\\_L02\\_74 & K562\\_CL100050285\\_L01\\_74 & 13613679 & 5575447 & 476813 & 256679 & 255969 & 71085 & 27.77094 & CL100050285\\_L01 & ⋯ & 3446285 & 7508041 & 65.27 & 11285 & 55 & CL100050926\\_L02 & scCAT\\_20171120\\_K562\\_R2\\_2.Summary.xls & K562 & 1 & K562\\\\\n",
"\t195 & K562\\_CL100050926\\_L02\\_75 & K562\\_CL100050285\\_L01\\_75 & 5457754 & 2165583 & 264092 & 198403 & 197835 & 58877 & 29.76066 & CL100050285\\_L01 & ⋯ & 1685777 & 3164631 & 61.12 & 11290 & 55 & CL100050926\\_L02 & scCAT\\_20171120\\_K562\\_R2\\_2.Summary.xls & K562 & 1 & K562\\\\\n",
"\t196 & K562\\_CL100050926\\_L02\\_76 & K562\\_CL100050285\\_L01\\_76 & 6402352 & 2672672 & 174744 & 278570 & 277744 & 64022 & 23.05072 & CL100050285\\_L01 & ⋯ & 2316479 & 3955022 & 54.84 & 9333 & 54 & CL100050926\\_L02 & scCAT\\_20171120\\_K562\\_R2\\_2.Summary.xls & K562 & 1 & K562\\\\\n",
"\t197 & K562\\_CL100050926\\_L02\\_79 & K562\\_CL100050285\\_L01\\_79 & 12761304 & 4866387 & 745518 & 135465 & 135050 & 33564 & 24.85302 & CL100050285\\_L01 & ⋯ & 1147616 & 1990981 & 52.02 & 10771 & 58 & CL100050926\\_L02 & scCAT\\_20171120\\_K562\\_R2\\_2.Summary.xls & K562 & 1 & K562\\\\\n",
"\t198 & K562\\_CL100050926\\_L02\\_81 & K562\\_CL100050285\\_L01\\_81 & 7185921 & 2710241 & 275639 & 155091 & 154689 & 49245 & 31.83484 & CL100050285\\_L01 & ⋯ & 1141739 & 1753633 & 46.39 & 8771 & 55 & CL100050926\\_L02 & scCAT\\_20171120\\_K562\\_R2\\_2.Summary.xls & K562 & 1 & K562\\\\\n",
"\t199 & K562\\_CL100050926\\_L02\\_83 & K562\\_CL100050285\\_L01\\_83 & 6844487 & 2554449 & 258591 & 114066 & 113722 & 41588 & 36.56988 & CL100050285\\_L01 & ⋯ & 1279759 & 1896822 & 50.18 & 9294 & 58 & CL100050926\\_L02 & scCAT\\_20171120\\_K562\\_R2\\_2.Summary.xls & K562 & 1 & K562\\\\\n",
"\t200 & K562\\_CL100050926\\_L02\\_84 & K562\\_CL100050285\\_L01\\_84 & 9489860 & 3570321 & 477264 & 117326 & 116964 & 40837 & 34.91416 & CL100050285\\_L01 & ⋯ & 696603 & 896722 & 45.57 & 8113 & 56 & CL100050926\\_L02 & scCAT\\_20171120\\_K562\\_R2\\_2.Summary.xls & K562 & 1 & K562\\\\\n",
"\t201 & K562\\_CL100050926\\_L02\\_85 & K562\\_CL100050285\\_L01\\_85 & 8190020 & 3442034 & 203888 & 256833 & 256433 & 68799 & 26.82923 & CL100050285\\_L01 & ⋯ & 719175 & 1386223 & 53.95 & 9863 & 54 & CL100050926\\_L02 & scCAT\\_20171120\\_K562\\_R2\\_2.Summary.xls & K562 & 1 & K562\\\\\n",
"\t202 & K562\\_CL100050926\\_L02\\_86 & K562\\_CL100050285\\_L01\\_86 & 6389431 & 2344510 & 348776 & 147524 & 147062 & 45558 & 30.97877 & CL100050285\\_L01 & ⋯ & 0 & 0 & 0.00 & 8320 & 15 & CL100050926\\_L02 & scCAT\\_20171120\\_K562\\_R2\\_2.Summary.xls & K562 & 1 & K562\\\\\n",
"\t203 & K562\\_CL100050926\\_L02\\_87 & K562\\_CL100050285\\_L01\\_87 & 7824263 & 3202200 & 403837 & 343968 & 342965 & 71415 & 20.82282 & CL100050285\\_L01 & ⋯ & 1219763 & 2037511 & 53.42 & 10581 & 53 & CL100050926\\_L02 & scCAT\\_20171120\\_K562\\_R2\\_2.Summary.xls & K562 & 1 & K562\\\\\n",
"\t204 & K562\\_CL100050926\\_L02\\_88 & K562\\_CL100050285\\_L01\\_88 & 8856414 & 3596359 & 293302 & 242555 & 242173 & 67996 & 28.07745 & CL100050285\\_L01 & ⋯ & 1536600 & 2698514 & 52.65 & 10177 & 59 & CL100050926\\_L02 & scCAT\\_20171120\\_K562\\_R2\\_2.Summary.xls & K562 & 1 & K562\\\\\n",
"\t205 & K562\\_CL100050926\\_L02\\_92 & K562\\_CL100050285\\_L01\\_92 & 8844021 & 3415434 & 317032 & 162210 & 161744 & 50794 & 31.40395 & CL100050285\\_L01 & ⋯ & 1711834 & 3049732 & 53.16 & 10684 & 53 & CL100050926\\_L02 & scCAT\\_20171120\\_K562\\_R2\\_2.Summary.xls & K562 & 1 & K562\\\\\n",
"\t206 & K562\\_CL100050926\\_L02\\_93 & K562\\_CL100050285\\_L01\\_93 & 8808033 & 3395271 & 361735 & 167314 & 166906 & 56941 & 34.11561 & CL100050285\\_L01 & ⋯ & 1094139 & 1938947 & 56.24 & 9417 & 57 & CL100050926\\_L02 & scCAT\\_20171120\\_K562\\_R2\\_2.Summary.xls & K562 & 1 & K562\\\\\n",
"\\end{tabular}\n"
],
"text/markdown": [
"\n",
"A data.frame: 206 × 32\n",
"\n",
"| <!--/--> | sample.rna <chr> | sample.atac <chr> | Total.Read.Pairs <int> | Mapped.read.pairs <int> | chrM.read.pairs <int> | Unique.Flagments <int> | Usable.Flagments <int> | Flagments.in.peaks <int> | Rate.of.Flagments.in.peaks... <dbl> | lane.atac <chr> | ⋯ ⋯ | unique.mapped.gene. <int> | Multiple.mapped.gene. <int> | Gene.mapped.rate... <dbl> | Gene.number.FPKM..1. <int> | ERCC.number <int> | lane.rna.y <chr> | batch.rna.y <chr> | celltype <chr> | quality.pass <int> | Type <chr> |\n",
"|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|\n",
"| 1 | HCT_CL100049490_L01_10 | HCT_CL100050215_L01_10 | 5652832 | 2142410 | 308401 | 288574 | 287830 | 43823 | 15.22531 | CL100050215_L01 | ⋯ | 2428210 | 6764665 | 79.13 | 12728 | 57 | CL100049490_L01 | scCAT_20171127_HCT_R1_1.Summary.xls | HCT | 1 | HCT |\n",
"| 2 | HCT_CL100049490_L01_14 | HCT_CL100050215_L01_14 | 7927709 | 2420888 | 227655 | 168073 | 167591 | 47288 | 28.21631 | CL100050215_L01 | ⋯ | 2454685 | 6494370 | 74.84 | 12813 | 55 | CL100049490_L01 | scCAT_20171127_HCT_R1_1.Summary.xls | HCT | 1 | HCT |\n",
"| 3 | HCT_CL100049490_L01_15 | HCT_CL100050215_L01_15 | 8299477 | 3220612 | 261155 | 295228 | 294344 | 60415 | 20.52530 | CL100050215_L01 | ⋯ | 3394474 | 9403818 | 77.33 | 13510 | 55 | CL100049490_L01 | scCAT_20171127_HCT_R1_1.Summary.xls | HCT | 1 | HCT |\n",
"| 4 | HCT_CL100049490_L01_16 | HCT_CL100050215_L01_16 | 7949453 | 2976918 | 181194 | 203974 | 203278 | 46737 | 22.99167 | CL100050215_L01 | ⋯ | 3689905 | 8437816 | 76.62 | 11754 | 55 | CL100049490_L01 | scCAT_20171127_HCT_R1_1.Summary.xls | HCT | 1 | HCT |\n",
"| 5 | HCT_CL100049490_L01_19 | HCT_CL100050215_L01_19 | 11619678 | 4256602 | 461415 | 440250 | 439264 | 92790 | 21.12397 | CL100050215_L01 | ⋯ | 2606176 | 6962609 | 79.86 | 13875 | 55 | CL100049490_L01 | scCAT_20171127_HCT_R1_1.Summary.xls | HCT | 1 | HCT |\n",
"| 6 | HCT_CL100049490_L01_2 | HCT_CL100050215_L01_2 | 15639248 | 6190197 | 491529 | 672421 | 670961 | 116239 | 17.32426 | CL100050215_L01 | ⋯ | 4587203 | 11397784 | 78.55 | 13526 | 59 | CL100049490_L01 | scCAT_20171127_HCT_R1_1.Summary.xls | HCT | 1 | HCT |\n",
"| 7 | HCT_CL100049490_L01_21 | HCT_CL100050215_L01_21 | 12207598 | 4472701 | 316767 | 310128 | 309360 | 55739 | 18.01752 | CL100050215_L01 | ⋯ | 3625588 | 10465020 | 81.48 | 12897 | 54 | CL100049490_L01 | scCAT_20171127_HCT_R1_1.Summary.xls | HCT | 1 | HCT |\n",
"| 8 | HCT_CL100049490_L01_22 | HCT_CL100050215_L01_22 | 13049794 | 5233571 | 695232 | 587671 | 585947 | 107482 | 18.34330 | CL100050215_L01 | ⋯ | 3754738 | 9237028 | 76.17 | 14662 | 60 | CL100049490_L01 | scCAT_20171127_HCT_R1_1.Summary.xls | HCT | 1 | HCT |\n",
"| 9 | HCT_CL100049490_L01_24 | HCT_CL100050215_L01_24 | 19661805 | 6938338 | 648426 | 234046 | 233199 | 52978 | 22.71794 | CL100050215_L01 | ⋯ | 4246809 | 10543787 | 78.98 | 12993 | 57 | CL100049490_L01 | scCAT_20171127_HCT_R1_1.Summary.xls | HCT | 1 | HCT |\n",
"| 10 | HCT_CL100049490_L01_27 | HCT_CL100050215_L01_27 | 9373525 | 3296821 | 649736 | 180529 | 180050 | 53782 | 29.87059 | CL100050215_L01 | ⋯ | 3613369 | 9721237 | 81.39 | 13065 | 55 | CL100049490_L01 | scCAT_20171127_HCT_R1_1.Summary.xls | HCT | 1 | HCT |\n",
"| 11 | HCT_CL100049490_L01_28 | HCT_CL100050215_L01_28 | 7877579 | 3132790 | 260317 | 286857 | 285920 | 54314 | 18.99622 | CL100050215_L01 | ⋯ | 2133607 | 3647949 | 72.48 | 9794 | 57 | CL100049490_L01 | scCAT_20171127_HCT_R1_1.Summary.xls | HCT | 1 | HCT |\n",
"| 12 | HCT_CL100049490_L01_29 | HCT_CL100050215_L01_29 | 21776712 | 7482894 | 982492 | 298179 | 297567 | 68860 | 23.14101 | CL100050215_L01 | ⋯ | 3386812 | 6009368 | 72.63 | 9945 | 57 | CL100049490_L01 | scCAT_20171127_HCT_R1_1.Summary.xls | HCT | 1 | HCT |\n",
"| 13 | HCT_CL100049490_L01_3 | HCT_CL100050215_L01_3 | 9845825 | 3912150 | 320557 | 449068 | 447583 | 87311 | 19.50722 | CL100050215_L01 | ⋯ | 3819552 | 9908040 | 79.27 | 13267 | 55 | CL100049490_L01 | scCAT_20171127_HCT_R1_1.Summary.xls | HCT | 1 | HCT |\n",
"| 14 | HCT_CL100049490_L01_34 | HCT_CL100050215_L01_34 | 9534961 | 3634362 | 457898 | 463221 | 462305 | 106019 | 22.93270 | CL100050215_L01 | ⋯ | 1805290 | 4509608 | 82.15 | 13167 | 53 | CL100049490_L01 | scCAT_20171127_HCT_R1_1.Summary.xls | HCT | 1 | HCT |\n",
"| 15 | HCT_CL100049490_L01_35 | HCT_CL100050215_L01_35 | 6673741 | 2472033 | 439604 | 302037 | 301379 | 54893 | 18.21394 | CL100050215_L01 | ⋯ | 2080405 | 3914773 | 73.21 | 10004 | 54 | CL100049490_L01 | scCAT_20171127_HCT_R1_1.Summary.xls | HCT | 1 | HCT |\n",
"| 16 | HCT_CL100049490_L01_37 | HCT_CL100050215_L01_37 | 6610833 | 2509364 | 197861 | 134453 | 133994 | 38849 | 28.99309 | CL100050215_L01 | ⋯ | 2029249 | 3734402 | 68.84 | 10418 | 54 | CL100049490_L01 | scCAT_20171127_HCT_R1_1.Summary.xls | HCT | 1 | HCT |\n",
"| 17 | HCT_CL100049490_L01_38 | HCT_CL100050215_L01_38 | 7449277 | 2684595 | 191957 | 244797 | 244193 | 51224 | 20.97685 | CL100050215_L01 | ⋯ | 3122499 | 9708945 | 80.37 | 13665 | 57 | CL100049490_L01 | scCAT_20171127_HCT_R1_1.Summary.xls | HCT | 1 | HCT |\n",
"| 18 | HCT_CL100049490_L01_39 | HCT_CL100050215_L01_39 | 7580988 | 2711849 | 289509 | 213777 | 213113 | 46802 | 21.96112 | CL100050215_L01 | ⋯ | 3085234 | 7780639 | 78.36 | 12123 | 54 | CL100049490_L01 | scCAT_20171127_HCT_R1_1.Summary.xls | HCT | 1 | HCT |\n",
"| 19 | HCT_CL100049490_L01_4 | HCT_CL100050215_L01_4 | 4644731 | 1695919 | 182180 | 154122 | 153675 | 42274 | 27.50870 | CL100050215_L01 | ⋯ | 2523170 | 5488992 | 72.42 | 10777 | 55 | CL100049490_L01 | scCAT_20171127_HCT_R1_1.Summary.xls | HCT | 1 | HCT |\n",
"| 20 | HCT_CL100049490_L01_44 | HCT_CL100050215_L01_44 | 6442136 | 2244575 | 260036 | 158652 | 158165 | 45020 | 28.46395 | CL100050215_L01 | ⋯ | 3011676 | 7234352 | 79.22 | 11113 | 54 | CL100049490_L01 | scCAT_20171127_HCT_R1_1.Summary.xls | HCT | 1 | HCT |\n",
"| 21 | HCT_CL100049490_L01_45 | HCT_CL100050215_L01_45 | 9616535 | 3538090 | 291406 | 177936 | 177616 | 50794 | 28.59765 | CL100050215_L01 | ⋯ | 2649742 | 5225764 | 74.33 | 10320 | 53 | CL100049490_L01 | scCAT_20171127_HCT_R1_1.Summary.xls | HCT | 1 | HCT |\n",
"| 22 | HCT_CL100049490_L01_48 | HCT_CL100050215_L01_48 | 13395100 | 5147289 | 1223087 | 345127 | 343880 | 76632 | 22.28452 | CL100050215_L01 | ⋯ | 3566080 | 8085073 | 75.64 | 14160 | 58 | CL100049490_L01 | scCAT_20171127_HCT_R1_1.Summary.xls | HCT | 1 | HCT |\n",
"| 23 | HCT_CL100049490_L01_7 | HCT_CL100050215_L01_7 | 8182994 | 3054987 | 294601 | 183450 | 182948 | 45978 | 25.13173 | CL100050215_L01 | ⋯ | 3654687 | 8885375 | 75.95 | 12536 | 50 | CL100049490_L01 | scCAT_20171127_HCT_R1_1.Summary.xls | HCT | 1 | HCT |\n",
"| 24 | HCT_CL100049490_L02_49 | HCT_CL100050215_L02_49 | 7330285 | 2522058 | 371872 | 135905 | 135430 | 35488 | 26.20394 | CL100050215_L02 | ⋯ | 4689611 | 3852880 | 68.90 | 7102 | 58 | CL100049490_L02 | scCAT_20171127_HCT_R1_2.Summary.xls | HCT | 1 | HCT |\n",
"| 25 | HCT_CL100049490_L02_52 | HCT_CL100050215_L02_52 | 6154951 | 2506077 | 89906 | 384514 | 383449 | 58533 | 15.26487 | CL100050215_L02 | ⋯ | 4231411 | 9042554 | 81.07 | 11170 | 59 | CL100049490_L02 | scCAT_20171127_HCT_R1_2.Summary.xls | HCT | 1 | HCT |\n",
"| 26 | HCT_CL100049490_L02_53 | HCT_CL100050215_L02_53 | 7275464 | 2387383 | 530103 | 75812 | 75507 | 25532 | 33.81408 | CL100050215_L02 | ⋯ | 2628533 | 3479982 | 69.38 | 8019 | 52 | CL100049490_L02 | scCAT_20171127_HCT_R1_2.Summary.xls | HCT | 1 | HCT |\n",
"| 27 | HCT_CL100049490_L02_54 | HCT_CL100050215_L02_54 | 4660386 | 1631143 | 135612 | 170875 | 170349 | 31943 | 18.75150 | CL100050215_L02 | ⋯ | 3077367 | 8593264 | 81.36 | 12976 | 55 | CL100049490_L02 | scCAT_20171127_HCT_R1_2.Summary.xls | HCT | 1 | HCT |\n",
"| 28 | HCT_CL100049490_L02_55 | HCT_CL100050215_L02_55 | 8714310 | 3391598 | 128932 | 325917 | 325278 | 64082 | 19.70069 | CL100050215_L02 | ⋯ | 3606508 | 8546984 | 80.14 | 11753 | 57 | CL100049490_L02 | scCAT_20171127_HCT_R1_2.Summary.xls | HCT | 1 | HCT |\n",
"| 29 | HCT_CL100049490_L02_59 | HCT_CL100050215_L02_59 | 6453873 | 2449859 | 182694 | 210510 | 210035 | 42802 | 20.37851 | CL100050215_L02 | ⋯ | 3747514 | 9985878 | 83.36 | 12604 | 57 | CL100049490_L02 | scCAT_20171127_HCT_R1_2.Summary.xls | HCT | 1 | HCT |\n",
"| 30 | HCT_CL100049490_L02_61 | HCT_CL100050215_L02_61 | 7898324 | 2940616 | 245979 | 271435 | 270527 | 48518 | 17.93462 | CL100050215_L02 | ⋯ | 2858528 | 6427675 | 76.20 | 12558 | 49 | CL100049490_L02 | scCAT_20171127_HCT_R1_2.Summary.xls | HCT | 1 | HCT |\n",
"| ⋮ | ⋮ | ⋮ | ⋮ | ⋮ | ⋮ | ⋮ | ⋮ | ⋮ | ⋮ | ⋮ | ⋱ | ⋮ | ⋮ | ⋮ | ⋮ | ⋮ | ⋮ | ⋮ | ⋮ | ⋮ | ⋮ |\n",
"| 177 | K562_CL100050926_L01_5 | K562_CL100050944_L02_5 | 1600764 | 534935 | 49801 | 99104 | 98826 | 37079 | 37.51948 | CL100050944_L02 | ⋯ | 2034980 | 2259999 | 30.64 | 8804 | 55 | CL100050926_L01 | scCAT_20171120_K562_R2_1.Summary.xls | K562 | 1 | K562 |\n",
"| 178 | K562_CL100050926_L01_6 | K562_CL100050944_L02_6 | 3102654 | 1176392 | 106066 | 151401 | 151093 | 50955 | 33.72426 | CL100050944_L02 | ⋯ | 3866525 | 7405675 | 69.73 | 10919 | 53 | CL100050926_L01 | scCAT_20171120_K562_R2_1.Summary.xls | K562 | 1 | K562 |\n",
"| 179 | K562_CL100050926_L01_7 | K562_CL100050944_L02_7 | 2872871 | 1016501 | 121555 | 158472 | 157795 | 26973 | 17.09370 | CL100050944_L02 | ⋯ | 2118281 | 3694831 | 54.59 | 10396 | 58 | CL100050926_L01 | scCAT_20171120_K562_R2_1.Summary.xls | K562 | 1 | K562 |\n",
"| 180 | K562_CL100050926_L01_9 | K562_CL100050944_L02_9 | 2320373 | 749173 | 72366 | 110087 | 109752 | 36472 | 33.23129 | CL100050944_L02 | ⋯ | 1676578 | 3386428 | 60.65 | 10240 | 59 | CL100050926_L01 | scCAT_20171120_K562_R2_1.Summary.xls | K562 | 1 | K562 |\n",
"| 181 | K562_CL100050926_L02_49 | K562_CL100050285_L01_49 | 4617994 | 1759483 | 177312 | 106716 | 106349 | 38171 | 35.89220 | CL100050285_L01 | ⋯ | 5061990 | 6725433 | 56.88 | 10965 | 57 | CL100050926_L02 | scCAT_20171120_K562_R2_2.Summary.xls | K562 | 1 | K562 |\n",
"| 182 | K562_CL100050926_L02_51 | K562_CL100050285_L01_51 | 1752360 | 722718 | 45958 | 157594 | 157210 | 45229 | 28.76980 | CL100050285_L01 | ⋯ | 2425740 | 3455377 | 66.99 | 9516 | 57 | CL100050926_L02 | scCAT_20171120_K562_R2_2.Summary.xls | K562 | 1 | K562 |\n",
"| 183 | K562_CL100050926_L02_52 | K562_CL100050285_L01_52 | 3143374 | 1270458 | 105869 | 159532 | 159171 | 48792 | 30.65383 | CL100050285_L01 | ⋯ | 2424105 | 4833142 | 67.11 | 10712 | 58 | CL100050926_L02 | scCAT_20171120_K562_R2_2.Summary.xls | K562 | 1 | K562 |\n",
"| 184 | K562_CL100050926_L02_53 | K562_CL100050285_L01_53 | 3696691 | 1486033 | 159804 | 138489 | 138140 | 47693 | 34.52512 | CL100050285_L01 | ⋯ | 2885660 | 6129342 | 62.69 | 10852 | 56 | CL100050926_L02 | scCAT_20171120_K562_R2_2.Summary.xls | K562 | 1 | K562 |\n",
"| 185 | K562_CL100050926_L02_55 | K562_CL100050285_L01_55 | 2467380 | 936918 | 94401 | 110453 | 110105 | 37943 | 34.46074 | CL100050285_L01 | ⋯ | 2450006 | 3894558 | 60.44 | 10389 | 61 | CL100050926_L02 | scCAT_20171120_K562_R2_2.Summary.xls | K562 | 1 | K562 |\n",
"| 186 | K562_CL100050926_L02_57 | K562_CL100050285_L01_57 | 3839823 | 1560427 | 93128 | 173277 | 172876 | 58197 | 33.66401 | CL100050285_L01 | ⋯ | 2829703 | 5570123 | 62.79 | 11820 | 55 | CL100050926_L02 | scCAT_20171120_K562_R2_2.Summary.xls | K562 | 1 | K562 |\n",
"| 187 | K562_CL100050926_L02_63 | K562_CL100050285_L01_63 | 5971755 | 2340394 | 239230 | 156131 | 155671 | 48646 | 31.24924 | CL100050285_L01 | ⋯ | 2258669 | 3804096 | 53.12 | 10746 | 56 | CL100050926_L02 | scCAT_20171120_K562_R2_2.Summary.xls | K562 | 1 | K562 |\n",
"| 188 | K562_CL100050926_L02_66 | K562_CL100050285_L01_66 | 3232764 | 1311890 | 131085 | 190151 | 189901 | 54506 | 28.70232 | CL100050285_L01 | ⋯ | 1882807 | 3366743 | 55.90 | 9868 | 55 | CL100050926_L02 | scCAT_20171120_K562_R2_2.Summary.xls | K562 | 1 | K562 |\n",
"| 189 | K562_CL100050926_L02_67 | K562_CL100050285_L01_67 | 1398702 | 560373 | 51736 | 131049 | 130719 | 43734 | 33.45650 | CL100050285_L01 | ⋯ | 795704 | 1203928 | 46.79 | 9645 | 52 | CL100050926_L02 | scCAT_20171120_K562_R2_2.Summary.xls | K562 | 1 | K562 |\n",
"| 190 | K562_CL100050926_L02_70 | K562_CL100050285_L01_70 | 5175465 | 2055536 | 230859 | 141992 | 141665 | 51339 | 36.23972 | CL100050285_L01 | ⋯ | 963155 | 1690485 | 43.09 | 10437 | 58 | CL100050926_L02 | scCAT_20171120_K562_R2_2.Summary.xls | K562 | 1 | K562 |\n",
"| 191 | K562_CL100050926_L02_71 | K562_CL100050285_L01_71 | 3134194 | 1219812 | 124100 | 143777 | 143394 | 45830 | 31.96089 | CL100050285_L01 | ⋯ | 1601575 | 2276337 | 48.18 | 9736 | 55 | CL100050926_L02 | scCAT_20171120_K562_R2_2.Summary.xls | K562 | 1 | K562 |\n",
"| 192 | K562_CL100050926_L02_72 | K562_CL100050285_L01_72 | 9477997 | 3610865 | 430052 | 192794 | 192247 | 55831 | 29.04129 | CL100050285_L01 | ⋯ | 0 | 0 | 0.00 | 10335 | 6 | CL100050926_L02 | scCAT_20171120_K562_R2_2.Summary.xls | K562 | 1 | K562 |\n",
"| 193 | K562_CL100050926_L02_73 | K562_CL100050285_L01_73 | 9256517 | 3844102 | 218022 | 231168 | 230509 | 57949 | 25.13958 | CL100050285_L01 | ⋯ | 3836767 | 6047853 | 58.54 | 10823 | 57 | CL100050926_L02 | scCAT_20171120_K562_R2_2.Summary.xls | K562 | 1 | K562 |\n",
"| 194 | K562_CL100050926_L02_74 | K562_CL100050285_L01_74 | 13613679 | 5575447 | 476813 | 256679 | 255969 | 71085 | 27.77094 | CL100050285_L01 | ⋯ | 3446285 | 7508041 | 65.27 | 11285 | 55 | CL100050926_L02 | scCAT_20171120_K562_R2_2.Summary.xls | K562 | 1 | K562 |\n",
"| 195 | K562_CL100050926_L02_75 | K562_CL100050285_L01_75 | 5457754 | 2165583 | 264092 | 198403 | 197835 | 58877 | 29.76066 | CL100050285_L01 | ⋯ | 1685777 | 3164631 | 61.12 | 11290 | 55 | CL100050926_L02 | scCAT_20171120_K562_R2_2.Summary.xls | K562 | 1 | K562 |\n",
"| 196 | K562_CL100050926_L02_76 | K562_CL100050285_L01_76 | 6402352 | 2672672 | 174744 | 278570 | 277744 | 64022 | 23.05072 | CL100050285_L01 | ⋯ | 2316479 | 3955022 | 54.84 | 9333 | 54 | CL100050926_L02 | scCAT_20171120_K562_R2_2.Summary.xls | K562 | 1 | K562 |\n",
"| 197 | K562_CL100050926_L02_79 | K562_CL100050285_L01_79 | 12761304 | 4866387 | 745518 | 135465 | 135050 | 33564 | 24.85302 | CL100050285_L01 | ⋯ | 1147616 | 1990981 | 52.02 | 10771 | 58 | CL100050926_L02 | scCAT_20171120_K562_R2_2.Summary.xls | K562 | 1 | K562 |\n",
"| 198 | K562_CL100050926_L02_81 | K562_CL100050285_L01_81 | 7185921 | 2710241 | 275639 | 155091 | 154689 | 49245 | 31.83484 | CL100050285_L01 | ⋯ | 1141739 | 1753633 | 46.39 | 8771 | 55 | CL100050926_L02 | scCAT_20171120_K562_R2_2.Summary.xls | K562 | 1 | K562 |\n",
"| 199 | K562_CL100050926_L02_83 | K562_CL100050285_L01_83 | 6844487 | 2554449 | 258591 | 114066 | 113722 | 41588 | 36.56988 | CL100050285_L01 | ⋯ | 1279759 | 1896822 | 50.18 | 9294 | 58 | CL100050926_L02 | scCAT_20171120_K562_R2_2.Summary.xls | K562 | 1 | K562 |\n",
"| 200 | K562_CL100050926_L02_84 | K562_CL100050285_L01_84 | 9489860 | 3570321 | 477264 | 117326 | 116964 | 40837 | 34.91416 | CL100050285_L01 | ⋯ | 696603 | 896722 | 45.57 | 8113 | 56 | CL100050926_L02 | scCAT_20171120_K562_R2_2.Summary.xls | K562 | 1 | K562 |\n",
"| 201 | K562_CL100050926_L02_85 | K562_CL100050285_L01_85 | 8190020 | 3442034 | 203888 | 256833 | 256433 | 68799 | 26.82923 | CL100050285_L01 | ⋯ | 719175 | 1386223 | 53.95 | 9863 | 54 | CL100050926_L02 | scCAT_20171120_K562_R2_2.Summary.xls | K562 | 1 | K562 |\n",
"| 202 | K562_CL100050926_L02_86 | K562_CL100050285_L01_86 | 6389431 | 2344510 | 348776 | 147524 | 147062 | 45558 | 30.97877 | CL100050285_L01 | ⋯ | 0 | 0 | 0.00 | 8320 | 15 | CL100050926_L02 | scCAT_20171120_K562_R2_2.Summary.xls | K562 | 1 | K562 |\n",
"| 203 | K562_CL100050926_L02_87 | K562_CL100050285_L01_87 | 7824263 | 3202200 | 403837 | 343968 | 342965 | 71415 | 20.82282 | CL100050285_L01 | ⋯ | 1219763 | 2037511 | 53.42 | 10581 | 53 | CL100050926_L02 | scCAT_20171120_K562_R2_2.Summary.xls | K562 | 1 | K562 |\n",
"| 204 | K562_CL100050926_L02_88 | K562_CL100050285_L01_88 | 8856414 | 3596359 | 293302 | 242555 | 242173 | 67996 | 28.07745 | CL100050285_L01 | ⋯ | 1536600 | 2698514 | 52.65 | 10177 | 59 | CL100050926_L02 | scCAT_20171120_K562_R2_2.Summary.xls | K562 | 1 | K562 |\n",
"| 205 | K562_CL100050926_L02_92 | K562_CL100050285_L01_92 | 8844021 | 3415434 | 317032 | 162210 | 161744 | 50794 | 31.40395 | CL100050285_L01 | ⋯ | 1711834 | 3049732 | 53.16 | 10684 | 53 | CL100050926_L02 | scCAT_20171120_K562_R2_2.Summary.xls | K562 | 1 | K562 |\n",
"| 206 | K562_CL100050926_L02_93 | K562_CL100050285_L01_93 | 8808033 | 3395271 | 361735 | 167314 | 166906 | 56941 | 34.11561 | CL100050285_L01 | ⋯ | 1094139 | 1938947 | 56.24 | 9417 | 57 | CL100050926_L02 | scCAT_20171120_K562_R2_2.Summary.xls | K562 | 1 | K562 |\n",
"\n"
],
"text/plain": [
" sample.rna sample.atac Total.Read.Pairs\n",
"1 HCT_CL100049490_L01_10 HCT_CL100050215_L01_10 5652832 \n",
"2 HCT_CL100049490_L01_14 HCT_CL100050215_L01_14 7927709 \n",
"3 HCT_CL100049490_L01_15 HCT_CL100050215_L01_15 8299477 \n",
"4 HCT_CL100049490_L01_16 HCT_CL100050215_L01_16 7949453 \n",
"5 HCT_CL100049490_L01_19 HCT_CL100050215_L01_19 11619678 \n",
"6 HCT_CL100049490_L01_2 HCT_CL100050215_L01_2 15639248 \n",
"7 HCT_CL100049490_L01_21 HCT_CL100050215_L01_21 12207598 \n",
"8 HCT_CL100049490_L01_22 HCT_CL100050215_L01_22 13049794 \n",
"9 HCT_CL100049490_L01_24 HCT_CL100050215_L01_24 19661805 \n",
"10 HCT_CL100049490_L01_27 HCT_CL100050215_L01_27 9373525 \n",
"11 HCT_CL100049490_L01_28 HCT_CL100050215_L01_28 7877579 \n",
"12 HCT_CL100049490_L01_29 HCT_CL100050215_L01_29 21776712 \n",
"13 HCT_CL100049490_L01_3 HCT_CL100050215_L01_3 9845825 \n",
"14 HCT_CL100049490_L01_34 HCT_CL100050215_L01_34 9534961 \n",
"15 HCT_CL100049490_L01_35 HCT_CL100050215_L01_35 6673741 \n",
"16 HCT_CL100049490_L01_37 HCT_CL100050215_L01_37 6610833 \n",
"17 HCT_CL100049490_L01_38 HCT_CL100050215_L01_38 7449277 \n",
"18 HCT_CL100049490_L01_39 HCT_CL100050215_L01_39 7580988 \n",
"19 HCT_CL100049490_L01_4 HCT_CL100050215_L01_4 4644731 \n",
"20 HCT_CL100049490_L01_44 HCT_CL100050215_L01_44 6442136 \n",
"21 HCT_CL100049490_L01_45 HCT_CL100050215_L01_45 9616535 \n",
"22 HCT_CL100049490_L01_48 HCT_CL100050215_L01_48 13395100 \n",
"23 HCT_CL100049490_L01_7 HCT_CL100050215_L01_7 8182994 \n",
"24 HCT_CL100049490_L02_49 HCT_CL100050215_L02_49 7330285 \n",
"25 HCT_CL100049490_L02_52 HCT_CL100050215_L02_52 6154951 \n",
"26 HCT_CL100049490_L02_53 HCT_CL100050215_L02_53 7275464 \n",
"27 HCT_CL100049490_L02_54 HCT_CL100050215_L02_54 4660386 \n",
"28 HCT_CL100049490_L02_55 HCT_CL100050215_L02_55 8714310 \n",
"29 HCT_CL100049490_L02_59 HCT_CL100050215_L02_59 6453873 \n",
"30 HCT_CL100049490_L02_61 HCT_CL100050215_L02_61 7898324 \n",
"⋮ ⋮ ⋮ ⋮ \n",
"177 K562_CL100050926_L01_5 K562_CL100050944_L02_5 1600764 \n",
"178 K562_CL100050926_L01_6 K562_CL100050944_L02_6 3102654 \n",
"179 K562_CL100050926_L01_7 K562_CL100050944_L02_7 2872871 \n",
"180 K562_CL100050926_L01_9 K562_CL100050944_L02_9 2320373 \n",
"181 K562_CL100050926_L02_49 K562_CL100050285_L01_49 4617994 \n",
"182 K562_CL100050926_L02_51 K562_CL100050285_L01_51 1752360 \n",
"183 K562_CL100050926_L02_52 K562_CL100050285_L01_52 3143374 \n",
"184 K562_CL100050926_L02_53 K562_CL100050285_L01_53 3696691 \n",
"185 K562_CL100050926_L02_55 K562_CL100050285_L01_55 2467380 \n",
"186 K562_CL100050926_L02_57 K562_CL100050285_L01_57 3839823 \n",
"187 K562_CL100050926_L02_63 K562_CL100050285_L01_63 5971755 \n",
"188 K562_CL100050926_L02_66 K562_CL100050285_L01_66 3232764 \n",
"189 K562_CL100050926_L02_67 K562_CL100050285_L01_67 1398702 \n",
"190 K562_CL100050926_L02_70 K562_CL100050285_L01_70 5175465 \n",
"191 K562_CL100050926_L02_71 K562_CL100050285_L01_71 3134194 \n",
"192 K562_CL100050926_L02_72 K562_CL100050285_L01_72 9477997 \n",
"193 K562_CL100050926_L02_73 K562_CL100050285_L01_73 9256517 \n",
"194 K562_CL100050926_L02_74 K562_CL100050285_L01_74 13613679 \n",
"195 K562_CL100050926_L02_75 K562_CL100050285_L01_75 5457754 \n",
"196 K562_CL100050926_L02_76 K562_CL100050285_L01_76 6402352 \n",
"197 K562_CL100050926_L02_79 K562_CL100050285_L01_79 12761304 \n",
"198 K562_CL100050926_L02_81 K562_CL100050285_L01_81 7185921 \n",
"199 K562_CL100050926_L02_83 K562_CL100050285_L01_83 6844487 \n",
"200 K562_CL100050926_L02_84 K562_CL100050285_L01_84 9489860 \n",
"201 K562_CL100050926_L02_85 K562_CL100050285_L01_85 8190020 \n",
"202 K562_CL100050926_L02_86 K562_CL100050285_L01_86 6389431 \n",
"203 K562_CL100050926_L02_87 K562_CL100050285_L01_87 7824263 \n",
"204 K562_CL100050926_L02_88 K562_CL100050285_L01_88 8856414 \n",
"205 K562_CL100050926_L02_92 K562_CL100050285_L01_92 8844021 \n",
"206 K562_CL100050926_L02_93 K562_CL100050285_L01_93 8808033 \n",
" Mapped.read.pairs chrM.read.pairs Unique.Flagments Usable.Flagments\n",
"1 2142410 308401 288574 287830 \n",
"2 2420888 227655 168073 167591 \n",
"3 3220612 261155 295228 294344 \n",
"4 2976918 181194 203974 203278 \n",
"5 4256602 461415 440250 439264 \n",
"6 6190197 491529 672421 670961 \n",
"7 4472701 316767 310128 309360 \n",
"8 5233571 695232 587671 585947 \n",
"9 6938338 648426 234046 233199 \n",
"10 3296821 649736 180529 180050 \n",
"11 3132790 260317 286857 285920 \n",
"12 7482894 982492 298179 297567 \n",
"13 3912150 320557 449068 447583 \n",
"14 3634362 457898 463221 462305 \n",
"15 2472033 439604 302037 301379 \n",
"16 2509364 197861 134453 133994 \n",
"17 2684595 191957 244797 244193 \n",
"18 2711849 289509 213777 213113 \n",
"19 1695919 182180 154122 153675 \n",
"20 2244575 260036 158652 158165 \n",
"21 3538090 291406 177936 177616 \n",
"22 5147289 1223087 345127 343880 \n",
"23 3054987 294601 183450 182948 \n",
"24 2522058 371872 135905 135430 \n",
"25 2506077 89906 384514 383449 \n",
"26 2387383 530103 75812 75507 \n",
"27 1631143 135612 170875 170349 \n",
"28 3391598 128932 325917 325278 \n",
"29 2449859 182694 210510 210035 \n",
"30 2940616 245979 271435 270527 \n",
"⋮ ⋮ ⋮ ⋮ ⋮ \n",
"177 534935 49801 99104 98826 \n",
"178 1176392 106066 151401 151093 \n",
"179 1016501 121555 158472 157795 \n",
"180 749173 72366 110087 109752 \n",
"181 1759483 177312 106716 106349 \n",
"182 722718 45958 157594 157210 \n",
"183 1270458 105869 159532 159171 \n",
"184 1486033 159804 138489 138140 \n",
"185 936918 94401 110453 110105 \n",
"186 1560427 93128 173277 172876 \n",
"187 2340394 239230 156131 155671 \n",
"188 1311890 131085 190151 189901 \n",
"189 560373 51736 131049 130719 \n",
"190 2055536 230859 141992 141665 \n",
"191 1219812 124100 143777 143394 \n",
"192 3610865 430052 192794 192247 \n",
"193 3844102 218022 231168 230509 \n",
"194 5575447 476813 256679 255969 \n",
"195 2165583 264092 198403 197835 \n",
"196 2672672 174744 278570 277744 \n",
"197 4866387 745518 135465 135050 \n",
"198 2710241 275639 155091 154689 \n",
"199 2554449 258591 114066 113722 \n",
"200 3570321 477264 117326 116964 \n",
"201 3442034 203888 256833 256433 \n",
"202 2344510 348776 147524 147062 \n",
"203 3202200 403837 343968 342965 \n",
"204 3596359 293302 242555 242173 \n",
"205 3415434 317032 162210 161744 \n",
"206 3395271 361735 167314 166906 \n",
" Flagments.in.peaks Rate.of.Flagments.in.peaks... lane.atac ⋯\n",
"1 43823 15.22531 CL100050215_L01 ⋯\n",
"2 47288 28.21631 CL100050215_L01 ⋯\n",
"3 60415 20.52530 CL100050215_L01 ⋯\n",
"4 46737 22.99167 CL100050215_L01 ⋯\n",
"5 92790 21.12397 CL100050215_L01 ⋯\n",
"6 116239 17.32426 CL100050215_L01 ⋯\n",
"7 55739 18.01752 CL100050215_L01 ⋯\n",
"8 107482 18.34330 CL100050215_L01 ⋯\n",
"9 52978 22.71794 CL100050215_L01 ⋯\n",
"10 53782 29.87059 CL100050215_L01 ⋯\n",
"11 54314 18.99622 CL100050215_L01 ⋯\n",
"12 68860 23.14101 CL100050215_L01 ⋯\n",
"13 87311 19.50722 CL100050215_L01 ⋯\n",
"14 106019 22.93270 CL100050215_L01 ⋯\n",
"15 54893 18.21394 CL100050215_L01 ⋯\n",
"16 38849 28.99309 CL100050215_L01 ⋯\n",
"17 51224 20.97685 CL100050215_L01 ⋯\n",
"18 46802 21.96112 CL100050215_L01 ⋯\n",
"19 42274 27.50870 CL100050215_L01 ⋯\n",
"20 45020 28.46395 CL100050215_L01 ⋯\n",
"21 50794 28.59765 CL100050215_L01 ⋯\n",
"22 76632 22.28452 CL100050215_L01 ⋯\n",
"23 45978 25.13173 CL100050215_L01 ⋯\n",
"24 35488 26.20394 CL100050215_L02 ⋯\n",
"25 58533 15.26487 CL100050215_L02 ⋯\n",
"26 25532 33.81408 CL100050215_L02 ⋯\n",
"27 31943 18.75150 CL100050215_L02 ⋯\n",
"28 64082 19.70069 CL100050215_L02 ⋯\n",
"29 42802 20.37851 CL100050215_L02 ⋯\n",
"30 48518 17.93462 CL100050215_L02 ⋯\n",
"⋮ ⋮ ⋮ ⋮ ⋱\n",
"177 37079 37.51948 CL100050944_L02 ⋯\n",
"178 50955 33.72426 CL100050944_L02 ⋯\n",
"179 26973 17.09370 CL100050944_L02 ⋯\n",
"180 36472 33.23129 CL100050944_L02 ⋯\n",
"181 38171 35.89220 CL100050285_L01 ⋯\n",
"182 45229 28.76980 CL100050285_L01 ⋯\n",
"183 48792 30.65383 CL100050285_L01 ⋯\n",
"184 47693 34.52512 CL100050285_L01 ⋯\n",
"185 37943 34.46074 CL100050285_L01 ⋯\n",
"186 58197 33.66401 CL100050285_L01 ⋯\n",
"187 48646 31.24924 CL100050285_L01 ⋯\n",
"188 54506 28.70232 CL100050285_L01 ⋯\n",
"189 43734 33.45650 CL100050285_L01 ⋯\n",
"190 51339 36.23972 CL100050285_L01 ⋯\n",
"191 45830 31.96089 CL100050285_L01 ⋯\n",
"192 55831 29.04129 CL100050285_L01 ⋯\n",
"193 57949 25.13958 CL100050285_L01 ⋯\n",
"194 71085 27.77094 CL100050285_L01 ⋯\n",
"195 58877 29.76066 CL100050285_L01 ⋯\n",
"196 64022 23.05072 CL100050285_L01 ⋯\n",
"197 33564 24.85302 CL100050285_L01 ⋯\n",
"198 49245 31.83484 CL100050285_L01 ⋯\n",
"199 41588 36.56988 CL100050285_L01 ⋯\n",
"200 40837 34.91416 CL100050285_L01 ⋯\n",
"201 68799 26.82923 CL100050285_L01 ⋯\n",
"202 45558 30.97877 CL100050285_L01 ⋯\n",
"203 71415 20.82282 CL100050285_L01 ⋯\n",
"204 67996 28.07745 CL100050285_L01 ⋯\n",
"205 50794 31.40395 CL100050285_L01 ⋯\n",
"206 56941 34.11561 CL100050285_L01 ⋯\n",
" unique.mapped.gene. Multiple.mapped.gene. Gene.mapped.rate...\n",
"1 2428210 6764665 79.13 \n",
"2 2454685 6494370 74.84 \n",
"3 3394474 9403818 77.33 \n",
"4 3689905 8437816 76.62 \n",
"5 2606176 6962609 79.86 \n",
"6 4587203 11397784 78.55 \n",
"7 3625588 10465020 81.48 \n",
"8 3754738 9237028 76.17 \n",
"9 4246809 10543787 78.98 \n",
"10 3613369 9721237 81.39 \n",
"11 2133607 3647949 72.48 \n",
"12 3386812 6009368 72.63 \n",
"13 3819552 9908040 79.27 \n",
"14 1805290 4509608 82.15 \n",
"15 2080405 3914773 73.21 \n",
"16 2029249 3734402 68.84 \n",
"17 3122499 9708945 80.37 \n",
"18 3085234 7780639 78.36 \n",
"19 2523170 5488992 72.42 \n",
"20 3011676 7234352 79.22 \n",
"21 2649742 5225764 74.33 \n",
"22 3566080 8085073 75.64 \n",
"23 3654687 8885375 75.95 \n",
"24 4689611 3852880 68.90 \n",
"25 4231411 9042554 81.07 \n",
"26 2628533 3479982 69.38 \n",
"27 3077367 8593264 81.36 \n",
"28 3606508 8546984 80.14 \n",
"29 3747514 9985878 83.36 \n",
"30 2858528 6427675 76.20 \n",
"⋮ ⋮ ⋮ ⋮ \n",
"177 2034980 2259999 30.64 \n",
"178 3866525 7405675 69.73 \n",
"179 2118281 3694831 54.59 \n",
"180 1676578 3386428 60.65 \n",
"181 5061990 6725433 56.88 \n",
"182 2425740 3455377 66.99 \n",
"183 2424105 4833142 67.11 \n",
"184 2885660 6129342 62.69 \n",
"185 2450006 3894558 60.44 \n",
"186 2829703 5570123 62.79 \n",
"187 2258669 3804096 53.12 \n",
"188 1882807 3366743 55.90 \n",
"189 795704 1203928 46.79 \n",
"190 963155 1690485 43.09 \n",
"191 1601575 2276337 48.18 \n",
"192 0 0 0.00 \n",
"193 3836767 6047853 58.54 \n",
"194 3446285 7508041 65.27 \n",
"195 1685777 3164631 61.12 \n",
"196 2316479 3955022 54.84 \n",
"197 1147616 1990981 52.02 \n",
"198 1141739 1753633 46.39 \n",
"199 1279759 1896822 50.18 \n",
"200 696603 896722 45.57 \n",
"201 719175 1386223 53.95 \n",
"202 0 0 0.00 \n",
"203 1219763 2037511 53.42 \n",
"204 1536600 2698514 52.65 \n",
"205 1711834 3049732 53.16 \n",
"206 1094139 1938947 56.24 \n",
" Gene.number.FPKM..1. ERCC.number lane.rna.y \n",
"1 12728 57 CL100049490_L01\n",
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"29 12604 57 CL100049490_L02\n",
"30 12558 49 CL100049490_L02\n",
"⋮ ⋮ ⋮ ⋮ \n",
"177 8804 55 CL100050926_L01\n",
"178 10919 53 CL100050926_L01\n",
"179 10396 58 CL100050926_L01\n",
"180 10240 59 CL100050926_L01\n",
"181 10965 57 CL100050926_L02\n",
"182 9516 57 CL100050926_L02\n",
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"196 9333 54 CL100050926_L02\n",
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"205 10684 53 CL100050926_L02\n",
"206 9417 57 CL100050926_L02\n",
" batch.rna.y celltype quality.pass Type\n",
"1 scCAT_20171127_HCT_R1_1.Summary.xls HCT 1 HCT \n",
"2 scCAT_20171127_HCT_R1_1.Summary.xls HCT 1 HCT \n",
"3 scCAT_20171127_HCT_R1_1.Summary.xls HCT 1 HCT \n",
"4 scCAT_20171127_HCT_R1_1.Summary.xls HCT 1 HCT \n",
"5 scCAT_20171127_HCT_R1_1.Summary.xls HCT 1 HCT \n",
"6 scCAT_20171127_HCT_R1_1.Summary.xls HCT 1 HCT \n",
"7 scCAT_20171127_HCT_R1_1.Summary.xls HCT 1 HCT \n",
"8 scCAT_20171127_HCT_R1_1.Summary.xls HCT 1 HCT \n",
"9 scCAT_20171127_HCT_R1_1.Summary.xls HCT 1 HCT \n",
"10 scCAT_20171127_HCT_R1_1.Summary.xls HCT 1 HCT \n",
"11 scCAT_20171127_HCT_R1_1.Summary.xls HCT 1 HCT \n",
"12 scCAT_20171127_HCT_R1_1.Summary.xls HCT 1 HCT \n",
"13 scCAT_20171127_HCT_R1_1.Summary.xls HCT 1 HCT \n",
"14 scCAT_20171127_HCT_R1_1.Summary.xls HCT 1 HCT \n",
"15 scCAT_20171127_HCT_R1_1.Summary.xls HCT 1 HCT \n",
"16 scCAT_20171127_HCT_R1_1.Summary.xls HCT 1 HCT \n",
"17 scCAT_20171127_HCT_R1_1.Summary.xls HCT 1 HCT \n",
"18 scCAT_20171127_HCT_R1_1.Summary.xls HCT 1 HCT \n",
"19 scCAT_20171127_HCT_R1_1.Summary.xls HCT 1 HCT \n",
"20 scCAT_20171127_HCT_R1_1.Summary.xls HCT 1 HCT \n",
"21 scCAT_20171127_HCT_R1_1.Summary.xls HCT 1 HCT \n",
"22 scCAT_20171127_HCT_R1_1.Summary.xls HCT 1 HCT \n",
"23 scCAT_20171127_HCT_R1_1.Summary.xls HCT 1 HCT \n",
"24 scCAT_20171127_HCT_R1_2.Summary.xls HCT 1 HCT \n",
"25 scCAT_20171127_HCT_R1_2.Summary.xls HCT 1 HCT \n",
"26 scCAT_20171127_HCT_R1_2.Summary.xls HCT 1 HCT \n",
"27 scCAT_20171127_HCT_R1_2.Summary.xls HCT 1 HCT \n",
"28 scCAT_20171127_HCT_R1_2.Summary.xls HCT 1 HCT \n",
"29 scCAT_20171127_HCT_R1_2.Summary.xls HCT 1 HCT \n",
"30 scCAT_20171127_HCT_R1_2.Summary.xls HCT 1 HCT \n",
"⋮ ⋮ ⋮ ⋮ ⋮ \n",
"177 scCAT_20171120_K562_R2_1.Summary.xls K562 1 K562\n",
"178 scCAT_20171120_K562_R2_1.Summary.xls K562 1 K562\n",
"179 scCAT_20171120_K562_R2_1.Summary.xls K562 1 K562\n",
"180 scCAT_20171120_K562_R2_1.Summary.xls K562 1 K562\n",
"181 scCAT_20171120_K562_R2_2.Summary.xls K562 1 K562\n",
"182 scCAT_20171120_K562_R2_2.Summary.xls K562 1 K562\n",
"183 scCAT_20171120_K562_R2_2.Summary.xls K562 1 K562\n",
"184 scCAT_20171120_K562_R2_2.Summary.xls K562 1 K562\n",
"185 scCAT_20171120_K562_R2_2.Summary.xls K562 1 K562\n",
"186 scCAT_20171120_K562_R2_2.Summary.xls K562 1 K562\n",
"187 scCAT_20171120_K562_R2_2.Summary.xls K562 1 K562\n",
"188 scCAT_20171120_K562_R2_2.Summary.xls K562 1 K562\n",
"189 scCAT_20171120_K562_R2_2.Summary.xls K562 1 K562\n",
"190 scCAT_20171120_K562_R2_2.Summary.xls K562 1 K562\n",
"191 scCAT_20171120_K562_R2_2.Summary.xls K562 1 K562\n",
"192 scCAT_20171120_K562_R2_2.Summary.xls K562 1 K562\n",
"193 scCAT_20171120_K562_R2_2.Summary.xls K562 1 K562\n",
"194 scCAT_20171120_K562_R2_2.Summary.xls K562 1 K562\n",
"195 scCAT_20171120_K562_R2_2.Summary.xls K562 1 K562\n",
"196 scCAT_20171120_K562_R2_2.Summary.xls K562 1 K562\n",
"197 scCAT_20171120_K562_R2_2.Summary.xls K562 1 K562\n",
"198 scCAT_20171120_K562_R2_2.Summary.xls K562 1 K562\n",
"199 scCAT_20171120_K562_R2_2.Summary.xls K562 1 K562\n",
"200 scCAT_20171120_K562_R2_2.Summary.xls K562 1 K562\n",
"201 scCAT_20171120_K562_R2_2.Summary.xls K562 1 K562\n",
"202 scCAT_20171120_K562_R2_2.Summary.xls K562 1 K562\n",
"203 scCAT_20171120_K562_R2_2.Summary.xls K562 1 K562\n",
"204 scCAT_20171120_K562_R2_2.Summary.xls K562 1 K562\n",
"205 scCAT_20171120_K562_R2_2.Summary.xls K562 1 K562\n",
"206 scCAT_20171120_K562_R2_2.Summary.xls K562 1 K562"
]
},
"metadata": {},
"output_type": "display_data"
}
],
"source": [
"metadata"
]
},
{
"cell_type": "markdown",
"metadata": {},
"source": [
"## Running comparison\n",
"Two factor are then detected for each jDR method and the distribution of the cells with respect of Factor1 and Factor2 is plotted as a scatter plot. The obtained plots are available in the Results folder. The capability of the different jDR methods to cluster the cells accoridng to their cell line of origin is finally evaluated through the C-index, whose value is reported in the Results folder."
]
},
{
"cell_type": "code",
"execution_count": 2,
"metadata": {},
"outputs": [
{
"name": "stderr",
"output_type": "stream",
"text": [
"Loading required package: MASS\n",
"\n",
"Loading required package: NMF\n",
"\n",
"Loading required package: pkgmaker\n",
"\n",
"Loading required package: registry\n",
"\n",
"Loading required package: rngtools\n",
"\n",
"Loading required package: cluster\n",
"\n",
"NMF - BioConductor layer [OK] | Shared memory capabilities [NO: bigmemory] | Cores 27/28\n",
"\n",
" To enable shared memory capabilities, try: install.extras('\n",
"NMF\n",
"')\n",
"\n",
"Loading required package: mclust\n",
"\n",
"Package 'mclust' version 5.4.6\n",
"Type 'citation(\"mclust\")' for citing this R package in publications.\n",
"\n",
"Loading required package: InterSIM\n",
"\n",
"Loading required package: tools\n",
"\n",
"Loading required package: ade4\n",
"\n",
"\n",
"Attaching package: ‘ade4’\n",
"\n",
"\n",
"The following object is masked from ‘package:BiocGenerics’:\n",
"\n",
" score\n",
"\n",
"\n",
"\n",
"Attaching package: ‘GPArotation’\n",
"\n",
"\n",
"The following object is masked from ‘package:NMF’:\n",
"\n",
" entropy\n",
"\n",
"\n",
"\n",
"Attaching package: ‘MOFAtools’\n",
"\n",
"\n",
"The following objects are masked from ‘package:NMF’:\n",
"\n",
" featureNames, featureNames<-, predict, sampleNames, sampleNames<-\n",
"\n",
"\n",
"The following objects are masked from ‘package:Biobase’:\n",
"\n",
" featureNames, featureNames<-, sampleNames, sampleNames<-\n",
"\n",
"\n",
"The following object is masked from ‘package:stats’:\n",
"\n",
" predict\n",
"\n",
"\n",
"Loading required package: JADE\n",
"\n",
"Loading required package: lattice\n",
"\n",
"Loading required package: caTools\n",
"\n",
"Loading required package: gdata\n",
"\n",
"gdata: read.xls support for 'XLS' (Excel 97-2004) files ENABLED.\n",
"\n",
"\n",
"\n",
"gdata: read.xls support for 'XLSX' (Excel 2007+) files ENABLED.\n",
"\n",
"\n",
"Attaching package: ‘gdata’\n",
"\n",
"\n",
"The following object is masked from ‘package:Biobase’:\n",
"\n",
" combine\n",
"\n",
"\n",
"The following object is masked from ‘package:BiocGenerics’:\n",
"\n",
" combine\n",
"\n",
"\n",
"The following object is masked from ‘package:stats’:\n",
"\n",
" nobs\n",
"\n",
"\n",
"The following object is masked from ‘package:utils’:\n",
"\n",
" object.size\n",
"\n",
"\n",
"The following object is masked from ‘package:base’:\n",
"\n",
" startsWith\n",
"\n",
"\n",
"Loading required package: gtools\n",
"\n",
"\n",
"Attaching package: ‘gtools’\n",
"\n",
"\n",
"The following object is masked from ‘package:InterSIM’:\n",
"\n",
" logit\n",
"\n",
"\n",
"Loading required package: gplots\n",
"\n",
"\n",
"Attaching package: ‘gplots’\n",
"\n",
"\n",
"The following object is masked from ‘package:stats’:\n",
"\n",
" lowess\n",
"\n",
"\n",
"Warning message in createMOFAobject(omics):\n",
"“View names are not specified in the data, renaming them to: view_1, view_2\n",
"”\n",
"Creating MOFA object from list of matrices,\n",
" please make sure that samples are columns and features are rows...\n",
"\n",
"\n",
"Checking data options...\n",
"\n",
"Checking training options...\n",
"\n",
"Checking model options...\n",
"\n"
]
},
{
"name": "stdout",
"output_type": "stream",
"text": [
"[1] \"No output file provided, using a temporary file...\"\n",
"Generating warm start... \n",
"K=3:123\n"
]
},
{
"name": "stderr",
"output_type": "stream",
"text": [
"Saving 6.67 x 6.67 in image\n",
"\n",
"Saving 6.67 x 6.67 in image\n",
"\n",
"Saving 6.67 x 6.67 in image\n",
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"\n"
]
}
],
"source": [
"library(\"ggplot2\")\n",
"library(\"clusterCrit\")\n",
"source(\"runfactorization.R\")\n",
"\n",
"# Parameters for the plots\n",
"dot_size <- 1.5\n",
"dot_alpha <- 1.0\n",
"xlabel <- \"Factor 1\"\n",
"ylabel <- \"Factor 2\"\n",
"\n",
"# Load annotations from the metadata\n",
"sample_annot <- metadata[, c(\"sample.rna\", \"celltype\")]\n",
"\n",
"# Folder for results\n",
"results_folder <- \"../results_single_cell/\"\n",
"# Create output folder\n",
"dir.create(results_folder, showWarnings = FALSE)\n",
"\n",
"# Run factorization methods\n",
"out <- runfactorization(\"../data/single-cell/\",\n",
" c(\"CellLines_RNAseqCounts.txt\", \"CellLines_ATACseqCounts.txt\"),\n",
" 2, \n",
" sep=\"\\t\", \n",
" filtering=\"stringent\")\n",
"\n",
"c_index <- numeric(0)\n",
"\n",
"# For each factorization method\n",
"for(i in 1:length(out$factorizations)){\n",
" \n",
" # Get factorization result\n",
" factors <- out$factorizations[[i]][[1]]\n",
"\n",
" # Delete NAs\n",
" factors <- factors[!is.na(factors[,1]) & !is.na(factors[,2]), ]\n",
" sample_annot <- sample_annot[!is.na(sample_annot[,1]) & !is.na(sample_annot[,2]), ]\n",
"\n",
" # Data to be plotted\n",
" df <- data.frame(x = factors[,1], y = factors[,2], color_by = sample_annot[,2])\n",
" # Plot results\n",
" p <- ggplot(df, aes_string(x = \"x\", y = \"y\")) + \n",
" geom_point(aes_string(color = \"color_by\"), size=dot_size, alpha=dot_alpha) + \n",
" xlab(xlabel) + ylab(ylabel) +\n",
" # scale_shape_manual(values=c(19,1,2:18)[seq_along(unique(shape_by))]) +\n",
" theme(plot.margin = margin(20, 20, 10, 10), \n",
" axis.text = element_text(size = rel(1), color = \"black\"), \n",
" axis.title = element_text(size = 16), \n",
" axis.title.y = element_text(size = rel(1.1), margin = margin(0, 10, 0, 0)), \n",
" axis.title.x = element_text(size = rel(1.1), margin = margin(10, 0, 0, 0)), \n",
" axis.line = element_line(color = \"black\", size = 0.5), \n",
" axis.ticks = element_line(color = \"black\", size = 0.5),\n",
" panel.border = element_blank(), \n",
" panel.grid.major = element_blank(),\n",
" panel.grid.minor = element_blank(), \n",
" panel.background = element_blank(),\n",
" legend.key = element_rect(fill = \"white\"),\n",
" legend.text = element_text(size = 16),\n",
" legend.title = element_text(size =16)\n",
" )\n",
" p + scale_color_manual(values=c(\"#0072B2\", \"#D55E00\", \"#CC79A7\"))\n",
" # Export plot as JPEG image\n",
" ggsave(paste0(results_folder, \"plot_\",out$method[i],\".jpg\"))\n",
"\n",
" # Encode cell type annotations by numeric codes\n",
" ann <- factor(sample_annot[,2], levels=c(\"HCT\", \"Hela\", \"K562\"))\n",
" ann <- as.integer(ann)\n",
" # Compare factors and annotations\n",
" c_index <- c(c_index, intCriteria(factors, as.integer(ann), crit=c(\"C_index\"))$c_index)\n",
"\n",
"}\n",
"\n",
"# Build output table\n",
"report_cindex <- data.frame(method=out$method, cindex=c_index)\n",
"\n",
"# Export results as one tab-separated table\n",
"write.table(report_cindex, file = paste0(results_folder, \"singlecell_cindex.txt\"), \n",
" sep=\"\\t\", col.names=FALSE, row.names=FALSE, quote=FALSE)\n"
]
},
{
"cell_type": "code",
"execution_count": null,
"metadata": {},
"outputs": [],
"source": []
}
],
"metadata": {
"kernelspec": {
"display_name": "R",
"language": "R",
"name": "ir"
},
"language_info": {
"codemirror_mode": "r",
"file_extension": ".r",
"mimetype": "text/x-r-source",
"name": "R",
"pygments_lexer": "r",
"version": "3.5.1"
}
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"nbformat": 4,
"nbformat_minor": 2
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Datasets
Models
