Mercurial > repos > iuc > varscan_mpileup

comparison test-data/varscan_somatic_indel_result1.vcf @ 0:1e667badbe87 draft

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planemo upload for repository https://github.com/galaxyproject/iuc/tree/master/tools/varscan commit 44c3f913e091bfdb94870ec3181390ad98711797
author iuc
date Tue, 10 Jul 2018 13:36:03 -0400
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-1:000000000000 0:1e667badbe87
1 ##fileformat=VCFv4.1
2 ##source=VarScan2
3 ##INFO=<ID=DP,Number=1,Type=Integer,Description="Total depth of quality bases">
4 ##INFO=<ID=SOMATIC,Number=0,Type=Flag,Description="Indicates if record is a somatic mutation">
5 ##INFO=<ID=SS,Number=1,Type=String,Description="Somatic status of variant (0=Reference,1=Germline,2=Somatic,3=LOH, or 5=Unknown)">
6 ##INFO=<ID=SSC,Number=1,Type=String,Description="Somatic score in Phred scale (0-255) derived from somatic p-value">
7 ##INFO=<ID=GPV,Number=1,Type=Float,Description="Fisher's Exact Test P-value of tumor+normal versus no variant for Germline calls">
8 ##INFO=<ID=SPV,Number=1,Type=Float,Description="Fisher's Exact Test P-value of tumor versus normal for Somatic/LOH calls">
9 ##FILTER=<ID=str10,Description="Less than 10% or more than 90% of variant supporting reads on one strand">
10 ##FILTER=<ID=indelError,Description="Likely artifact due to indel reads at this position">
11 ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
12 ##FORMAT=<ID=GQ,Number=1,Type=Integer,Description="Genotype Quality">
13 ##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Read Depth">
14 ##FORMAT=<ID=RD,Number=1,Type=Integer,Description="Depth of reference-supporting bases (reads1)">
15 ##FORMAT=<ID=AD,Number=1,Type=Integer,Description="Depth of variant-supporting bases (reads2)">
16 ##FORMAT=<ID=FREQ,Number=1,Type=String,Description="Variant allele frequency">
17 ##FORMAT=<ID=DP4,Number=1,Type=String,Description="Strand read counts: ref/fwd, ref/rev, var/fwd, var/rev">
18 #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT NORMAL TUMOR