Switch to side-by-side view

--- a
+++ b/mermaidPlot/bulkRNApre.svg
@@ -0,0 +1 @@
+<svg id="mermaid-1615915899717" width="100%" xmlns="http://www.w3.org/2000/svg" xmlns:xlink="http://www.w3.org/1999/xlink" height="457.3999938964844" style="max-width: 469.125px;" viewBox="0 0 469.125 457.3999938964844"><style>#mermaid-1615915899717{font-family:"trebuchet ms",verdana,arial,sans-serif;font-size:18px;fill:#333;}#mermaid-1615915899717 .error-icon{fill:#552222;}#mermaid-1615915899717 .error-text{fill:#552222;stroke:#552222;}#mermaid-1615915899717 .edge-thickness-normal{stroke-width:2px;}#mermaid-1615915899717 .edge-thickness-thick{stroke-width:3.5px;}#mermaid-1615915899717 .edge-pattern-solid{stroke-dasharray:0;}#mermaid-1615915899717 .edge-pattern-dashed{stroke-dasharray:3;}#mermaid-1615915899717 .edge-pattern-dotted{stroke-dasharray:2;}#mermaid-1615915899717 .marker{fill:#333333;stroke:#333333;}#mermaid-1615915899717 .marker.cross{stroke:#333333;}#mermaid-1615915899717 svg{font-family:"trebuchet ms",verdana,arial,sans-serif;font-size:18px;}#mermaid-1615915899717 .label{font-family:"trebuchet ms",verdana,arial,sans-serif;color:#333;}#mermaid-1615915899717 .cluster-label text{fill:#333;}#mermaid-1615915899717 .cluster-label span{color:#333;}#mermaid-1615915899717 .label text,#mermaid-1615915899717 span{fill:#333;color:#333;}#mermaid-1615915899717 .node rect,#mermaid-1615915899717 .node circle,#mermaid-1615915899717 .node ellipse,#mermaid-1615915899717 .node polygon,#mermaid-1615915899717 .node path{fill:#ECECFF;stroke:#9370DB;stroke-width:1px;}#mermaid-1615915899717 .node .label{text-align:center;}#mermaid-1615915899717 .node.clickable{cursor:pointer;}#mermaid-1615915899717 .arrowheadPath{fill:#333333;}#mermaid-1615915899717 .edgePath .path{stroke:#333333;stroke-width:1.5px;}#mermaid-1615915899717 .flowchart-link{stroke:#333333;fill:none;}#mermaid-1615915899717 .edgeLabel{background-color:#ffffff;text-align:center;}#mermaid-1615915899717 .edgeLabel rect{opacity:0.5;background-color:#ffffff;fill:#ffffff;}#mermaid-1615915899717 .cluster rect{fill:#ffffde;stroke:#aaaa33;stroke-width:1px;}#mermaid-1615915899717 .cluster text{fill:#333;}#mermaid-1615915899717 .cluster span{color:#333;}#mermaid-1615915899717 div.mermaidTooltip{position:absolute;text-align:center;max-width:200px;padding:2px;font-family:"trebuchet ms",verdana,arial,sans-serif;font-size:12px;background:hsl(80,100%,96.2745098039%);border:1px solid #aaaa33;border-radius:2px;pointer-events:none;z-index:100;}#mermaid-1615915899717:root{--mermaid-font-family:"trebuchet ms",verdana,arial,sans-serif;}#mermaid-1615915899717 .default &gt; *{stroke-width:2px !important;}#mermaid-1615915899717 .default tspan{!important;}#mermaid-1615915899717 .qc &gt; *{fill:#ffffff !important;}#mermaid-1615915899717 .qc tspan{!important;}#mermaid-1615915899717 flowchart-v2{fill:apa;}</style><g transform="translate(0, 0)"><marker id="flowchart-pointEnd" class="marker flowchart" viewBox="0 0 10 10" refX="9" refY="5" markerUnits="userSpaceOnUse" markerWidth="12" markerHeight="12" orient="auto"><path d="M 0 0 L 10 5 L 0 10 z" class="arrowMarkerPath" style="stroke-width: 1; stroke-dasharray: 1, 0;"></path></marker><marker id="flowchart-pointStart" class="marker flowchart" viewBox="0 0 10 10" refX="0" refY="5" markerUnits="userSpaceOnUse" markerWidth="12" markerHeight="12" orient="auto"><path d="M 0 5 L 10 10 L 10 0 z" class="arrowMarkerPath" style="stroke-width: 1; stroke-dasharray: 1, 0;"></path></marker><marker id="flowchart-circleEnd" class="marker flowchart" viewBox="0 0 10 10" refX="11" refY="5" markerUnits="userSpaceOnUse" markerWidth="11" markerHeight="11" orient="auto"><circle cx="5" cy="5" r="5" class="arrowMarkerPath" style="stroke-width: 1; stroke-dasharray: 1, 0;"></circle></marker><marker id="flowchart-circleStart" class="marker flowchart" viewBox="0 0 10 10" refX="-1" refY="5" markerUnits="userSpaceOnUse" markerWidth="11" markerHeight="11" orient="auto"><circle cx="5" cy="5" r="5" class="arrowMarkerPath" style="stroke-width: 1; stroke-dasharray: 1, 0;"></circle></marker><marker id="flowchart-crossEnd" class="marker cross flowchart" viewBox="0 0 11 11" refX="12" refY="5.2" markerUnits="userSpaceOnUse" markerWidth="11" markerHeight="11" orient="auto"><path d="M 1,1 l 9,9 M 10,1 l -9,9" class="arrowMarkerPath" style="stroke-width: 2; stroke-dasharray: 1, 0;"></path></marker><marker id="flowchart-crossStart" class="marker cross flowchart" viewBox="0 0 11 11" refX="-1" refY="5.2" markerUnits="userSpaceOnUse" markerWidth="11" markerHeight="11" orient="auto"><path d="M 1,1 l 9,9 M 10,1 l -9,9" class="arrowMarkerPath" style="stroke-width: 2; stroke-dasharray: 1, 0;"></path></marker><g class="root"><g class="clusters"></g><g class="edgePaths"><path d="M138.24890263609942,43.79999923706055L125.66262764179753,49.69999933242798C113.07635264749564,55.59999942779541,87.90380265889185,67.39999961853027,75.31752766458997,82.18333307902019C62.731252670288086,96.96666653951009,62.731252670288086,114.73333326975505,62.731252670288086,132.5C62.731252670288086,150.26666673024496,62.731252670288086,168.0333334604899,65.36816244063947,182.90000025431314C68.00507221099086,197.76666704813638,73.27889175169362,209.73333390553793,75.91580152204502,215.71666733423868L78.5527112923964,221.70000076293945" id="L-A-a" class=" edge-thickness-normal edge-pattern-solid flowchart-link LS-A LE-a" style="fill:none;" marker-end="url(#flowchart-pointEnd)"></path><path d="M198.50083110129782,43.79999923706055L205.77413103808917,49.69999933242798C213.0474309748805,55.59999942779541,227.59403084846318,67.39999961853027,234.86733078525455,79.19999980926514C242.1406307220459,91,242.1406307220459,102.80000019073486,242.1406307220459,108.7000002861023L242.1406307220459,114.60000038146973" id="L-A-B" class=" edge-thickness-normal edge-pattern-solid flowchart-link LS-A LE-B" style="fill:none;" marker-end="url(#flowchart-pointEnd)"></path><path d="M211.70244499158926,150.39999961853027L201.66974652568555,156.2999997138977C191.63704805978182,162.19999980926514,171.5716511279744,174,154.34898631888882,185.8833335240682C137.12632150980323,197.76666704813638,122.74638882343949,209.73333390553793,115.55642248025761,215.71666733423868L108.36645613707574,221.70000076293945" id="L-B-a" class=" edge-thickness-normal edge-pattern-solid flowchart-link LS-B LE-a" style="fill:none;" marker-end="url(#flowchart-pointEnd)"></path><path d="M253.11718441050564,150.39999961853027L256.73515475625226,156.2999997138977C260.35312510199884,162.19999980926514,267.5890657934921,174,271.2070361392387,185.8000005086263C274.82500648498535,197.6000010172526,274.82500648498535,209.40000184377035,274.82500648498535,215.3000022570292L274.82500648498535,221.2000026702881" id="L-B-C" class=" edge-thickness-normal edge-pattern-solid flowchart-link LS-B LE-C" style="fill:none;" marker-end="url(#flowchart-pointEnd)"></path><path d="M242.9248907753988,257.00000190734863L232.4103265362617,262.9000023206075C221.8957622971246,268.8000027338664,200.86663381885037,280.6000035603841,190.4354029130466,292.48333740234375C180.00417200724283,304.3666712443034,180.17083867390954,316.3333381017049,180.2541720072429,322.31667153040564L180.33750534057623,328.3000049591064" id="L-C-c" class=" edge-thickness-normal edge-pattern-solid flowchart-link LS-C LE-c" style="fill:none;" marker-end="url(#flowchart-pointEnd)"></path><path d="M306.7251221945719,257.00000190734863L317.239686433709,262.9000023206075C327.7542506728461,268.8000027338664,348.7833791511203,280.6000035603841,359.2979433902574,292.40000438690186C369.81250762939453,304.2000052134196,369.81250762939453,316.0000060399373,369.81250762939453,321.9000064531962L369.81250762939453,327.8000068664551" id="L-C-D" class=" edge-thickness-normal edge-pattern-solid flowchart-link LS-C LE-D" style="fill:none;" marker-end="url(#flowchart-pointEnd)"></path><path d="M369.81250762939453,363.6000061035156L369.81250762939453,367.76667308807373C369.81250762939453,371.93334007263184,369.81250762939453,380.26667404174805,369.81250762939453,388.60000769297284C369.81250762939453,396.9333413441976,369.81250762939453,405.26667467753094,369.81250762939453,409.4333413441976L369.81250762939453,413.60000801086426" id="L-D-E" class=" edge-thickness-normal edge-pattern-solid flowchart-link LS-D LE-E" style="fill:none;" marker-end="url(#flowchart-pointEnd)"></path></g><g class="edgeLabels"><g class="edgeLabel" transform="translate(62.731252670288086, 132.5)"><g class="label" transform="translate(-26.137500762939453, -10.40000057220459)"><foreignObject width="52.275001525878906" height="20.80000114440918"><div xmlns="http://www.w3.org/1999/xhtml" style="display: inline-block; white-space: nowrap;"><span class="edgeLabel">Fastqc</span></div></foreignObject></g></g><g class="edgeLabel" transform="translate(242.1406307220459, 79.19999980926514)"><g class="label" transform="translate(-52.86249923706055, -10.40000057220459)"><foreignObject width="105.7249984741211" height="20.80000114440918"><div xmlns="http://www.w3.org/1999/xhtml" style="display: inline-block; white-space: nowrap;"><span class="edgeLabel">Trimmomatic</span></div></foreignObject></g></g><g class="edgeLabel" transform="translate(151.506254196167, 185.80000019073486)"><g class="label" transform="translate(-26.137500762939453, -10.40000057220459)"><foreignObject width="52.275001525878906" height="20.80000114440918"><div xmlns="http://www.w3.org/1999/xhtml" style="display: inline-block; white-space: nowrap;"><span class="edgeLabel">Fastqc</span></div></foreignObject></g></g><g class="edgeLabel" transform="translate(274.82500648498535, 185.80000019073486)"><g class="label" transform="translate(-19.231250762939453, -10.40000057220459)"><foreignObject width="38.462501525878906" height="20.80000114440918"><div xmlns="http://www.w3.org/1999/xhtml" style="display: inline-block; white-space: nowrap;"><span class="edgeLabel">STAR</span></div></foreignObject></g></g><g class="edgeLabel" transform="translate(179.83750534057617, 292.40000438690186)"><g class="label" transform="translate(-25.256250381469727, -10.40000057220459)"><foreignObject width="50.51250076293945" height="20.80000114440918"><div xmlns="http://www.w3.org/1999/xhtml" style="display: inline-block; white-space: nowrap;"><span class="edgeLabel">RseQC</span></div></foreignObject></g></g><g class="edgeLabel" transform="translate(369.81250762939453, 292.40000438690186)"><g class="label" transform="translate(-53.47500228881836, -10.40000057220459)"><foreignObject width="106.95000457763672" height="20.80000114440918"><div xmlns="http://www.w3.org/1999/xhtml" style="display: inline-block; white-space: nowrap;"><span class="edgeLabel">featureCount</span></div></foreignObject></g></g><g class="edgeLabel"><g class="label" transform="translate(0, 0)"><foreignObject width="0" height="0"><div xmlns="http://www.w3.org/1999/xhtml" style="display: inline-block; white-space: nowrap;"><span class="edgeLabel"></span></div></foreignObject></g></g></g><g class="nodes"><g class="node default default" id="flowchart-A-5391" transform="translate(176.43437957763672, 25.899999618530273)"><rect class="basic label-container" style="" rx="5" ry="5" x="-89.91875457763672" y="-17.90000057220459" width="179.83750915527344" height="35.80000114440918"></rect><g class="label" style="" transform="translate(-82.41875457763672, -10.40000057220459)"><foreignObject width="164.83750915527344" height="20.80000114440918"><div xmlns="http://www.w3.org/1999/xhtml" style="display: inline-block; white-space: nowrap;"><span class="nodeLabel">Raw data (.fastq.gz)</span></div></foreignObject></g></g><g class="node default qc" id="flowchart-a-5392" transform="translate(85.80000305175781, 239.10000228881836)"><polygon points="8.950000286102295,0 146.650004863739,0 155.6000051498413,-17.90000057220459 146.650004863739,-35.80000114440918 8.950000286102295,-35.80000114440918 0,-17.90000057220459" class="label-container" transform="translate(-77.80000257492065,17.90000057220459)" style=""></polygon><g class="label" style="" transform="translate(-61.35000228881836, -10.40000057220459)"><foreignObject width="122.70000457763672" height="20.80000114440918"><div xmlns="http://www.w3.org/1999/xhtml" style="display: inline-block; white-space: nowrap;"><span class="nodeLabel">Quality Control</span></div></foreignObject></g></g><g class="node default default" id="flowchart-B-5394" transform="translate(242.1406307220459, 132.5)"><rect class="basic label-container" style="" rx="5" ry="5" x="-70.2750015258789" y="-17.90000057220459" width="140.5500030517578" height="35.80000114440918"></rect><g class="label" style="" transform="translate(-62.775001525878906, -10.40000057220459)"><foreignObject width="125.55000305175781" height="20.80000114440918"><div xmlns="http://www.w3.org/1999/xhtml" style="display: inline-block; white-space: nowrap;"><span class="nodeLabel">Trim (.fastq.gz)</span></div></foreignObject></g></g><g class="node default default" id="flowchart-C-5398" transform="translate(274.82500648498535, 239.10000228881836)"><rect class="basic label-container" style="" rx="5" ry="5" x="-53.46875" y="-17.90000057220459" width="106.9375" height="35.80000114440918"></rect><g class="label" style="" transform="translate(-45.96875, -10.40000057220459)"><foreignObject width="91.9375" height="20.80000114440918"><div xmlns="http://www.w3.org/1999/xhtml" style="display: inline-block; white-space: nowrap;"><span class="nodeLabel">Map (.bam)</span></div></foreignObject></g></g><g class="node default qc" id="flowchart-c-5400" transform="translate(179.83750534057617, 345.70000648498535)"><polygon points="8.950000286102295,0 160.22500944137573,0 169.17500972747803,-17.90000057220459 160.22500944137573,-35.80000114440918 8.950000286102295,-35.80000114440918 0,-17.90000057220459" class="label-container" transform="translate(-84.58750486373901,17.90000057220459)" style=""></polygon><g class="label" style="" transform="translate(-68.13750457763672, -10.40000057220459)"><foreignObject width="136.27500915527344" height="20.80000114440918"><div xmlns="http://www.w3.org/1999/xhtml" style="display: inline-block; white-space: nowrap;"><span class="nodeLabel">Infer experiment</span></div></foreignObject></g></g><g class="node default" id="flowchart-D-5402" transform="translate(369.81250762939453, 345.70000648498535)"><rect class="basic label-container" style="" rx="5" ry="5" x="-55.38750076293945" y="-17.90000057220459" width="110.7750015258789" height="35.80000114440918"></rect><g class="label" style="" transform="translate(-47.88750076293945, -10.40000057220459)"><foreignObject width="95.7750015258789" height="20.80000114440918"><div xmlns="http://www.w3.org/1999/xhtml" style="display: inline-block; white-space: nowrap;"><span class="nodeLabel">Count (.txt)</span></div></foreignObject></g></g><g class="node default default" id="flowchart-E-5404" transform="translate(369.81250762939453, 431.50000762939453)"><rect class="basic label-container" style="" rx="5" ry="5" x="-91.3125" y="-17.90000057220459" width="182.625" height="35.80000114440918"></rect><g class="label" style="" transform="translate(-83.8125, -10.40000057220459)"><foreignObject width="167.625" height="20.80000114440918"><div xmlns="http://www.w3.org/1999/xhtml" style="display: inline-block; white-space: nowrap;"><span class="nodeLabel">Downstream analysis</span></div></foreignObject></g></g></g></g></g></svg>
\ No newline at end of file