--- a +++ b/test/NeuSomatic_standalone.vcf @@ -0,0 +1,24 @@ +##fileformat=VCFv4.2 +##NeuSomatic Version=0.2.1 +##INFO=<ID=SCORE,Number=1,Type=Float,Description="Prediction probability score"> +##INFO=<ID=DP,Number=1,Type=Integer,Description="Read Depth in the tumor"> +##INFO=<ID=RO,Number=1,Type=Integer,Description="Reference allele observation count in the tumor"> +##INFO=<ID=AO,Number=A,Type=Integer,Description="Alternate allele observation count in the tumor"> +##INFO=<ID=AF,Number=1,Type=Float,Description="Allele fractions of alternate alleles in the tumor"> +##FILTER=<ID=PASS,Description="Accept as a higher confidence somatic mutation calls with probability score value at least 0.7"> +##FILTER=<ID=LowQual,Description="Less confident somatic mutation calls with probability score value at least 0.4"> +##FILTER=<ID=REJECT,Description="Rejected as a confident somatic mutation with probability score value below 0.4"> +##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype"> +##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Read Depth in the tumor"> +##FORMAT=<ID=RO,Number=1,Type=Integer,Description="Reference allele observation count in the tumor"> +##FORMAT=<ID=AO,Number=A,Type=Integer,Description="Alternate allele observation count in the tumor"> +##FORMAT=<ID=AF,Number=1,Type=Float,Description="Allele fractions of alternate alleles in the tumor"> +#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT SAMPLE +22 21330787 . C T 33.0111 PASS SCORE=0.9995;DP=396;RO=306;AO=88;AF=0.2234 GT:DP:RO:AO:AF 0/1:396:306:88:0.2234 +22 21332122 . G A 36.9903 PASS SCORE=0.9998;DP=285;RO=223;AO=62;AF=0.2175 GT:DP:RO:AO:AF 0/1:285:223:62:0.2175 +22 21334924 . G C 12.9061 PASS SCORE=0.9488;DP=106;RO=83;AO=23;AF=0.217 GT:DP:RO:AO:AF 0/1:106:83:23:0.217 +22 21335259 . C A 25.0876 PASS SCORE=0.9969;DP=249;RO=200;AO=49;AF=0.1968 GT:DP:RO:AO:AF 0/1:249:200:49:0.1968 +22 21384516 . C T 32.2191 PASS SCORE=0.9994;DP=95;RO=68;AO=27;AF=0.2842 GT:DP:RO:AO:AF 0/1:95:68:27:0.2842 +22 21982892 . C T 29.5872 PASS SCORE=0.9989;DP=158;RO=113;AO=45;AF=0.2848 GT:DP:RO:AO:AF 0/1:158:113:45:0.2848 +22 21983260 . A G 35.2289 PASS SCORE=0.9997;DP=118;RO=74;AO=44;AF=0.3729 GT:DP:RO:AO:AF 0/1:118:74:44:0.3729 +22 21989959 . AAG A 39.9993 PASS SCORE=0.9999;DP=139;RO=107;AO=32;AF=0.2302 GT:DP:RO:AO:AF 0/1:139:107:32:0.2302