Mercurial > repos > devteam > vcftools_isec

annotate test-data/2.vcf @ 0:799feac145c8 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded
author devteam
date Sun, 24 Nov 2013 11:12:03 -0500
parents
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
0
799feac145c8 Uploaded
devteam
parents:
diff changeset
1 ##fileformat=VCFv4.1
799feac145c8 Uploaded
devteam
parents:
diff changeset
2 ##FILTER=<ID=indelError,Description="Likely artifact due to indel reads at this position">
799feac145c8 Uploaded
devteam
parents:
diff changeset
3 ##FILTER=<ID=str10,Description="Less than 10% or more than 90% of variant supporting reads on one strand">
799feac145c8 Uploaded
devteam
parents:
diff changeset
4 ##FORMAT=<ID=ABQ,Number=1,Type=Integer,Description="Average quality of variant-supporting bases (qual2)">
799feac145c8 Uploaded
devteam
parents:
diff changeset
5 ##FORMAT=<ID=AD,Number=1,Type=Integer,Description="Depth of variant-supporting bases (reads2)">
799feac145c8 Uploaded
devteam
parents:
diff changeset
6 ##FORMAT=<ID=ADF,Number=1,Type=Integer,Description="Depth of variant-supporting bases on forward strand (reads2plus)">
799feac145c8 Uploaded
devteam
parents:
diff changeset
7 ##FORMAT=<ID=ADR,Number=1,Type=Integer,Description="Depth of variant-supporting bases on reverse strand (reads2minus)">
799feac145c8 Uploaded
devteam
parents:
diff changeset
8 ##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Quality Read Depth of bases with Phred score >= 15">
799feac145c8 Uploaded
devteam
parents:
diff changeset
9 ##FORMAT=<ID=FREQ,Number=1,Type=String,Description="Variant allele frequency">
799feac145c8 Uploaded
devteam
parents:
diff changeset
10 ##FORMAT=<ID=GQ,Number=1,Type=Integer,Description="Genotype Quality">
799feac145c8 Uploaded
devteam
parents:
diff changeset
11 ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
799feac145c8 Uploaded
devteam
parents:
diff changeset
12 ##FORMAT=<ID=PVAL,Number=1,Type=String,Description="P-value from Fisher's Exact Test">
799feac145c8 Uploaded
devteam
parents:
diff changeset
13 ##FORMAT=<ID=RBQ,Number=1,Type=Integer,Description="Average quality of reference-supporting bases (qual1)">
799feac145c8 Uploaded
devteam
parents:
diff changeset
14 ##FORMAT=<ID=RD,Number=1,Type=Integer,Description="Depth of reference-supporting bases (reads1)">
799feac145c8 Uploaded
devteam
parents:
diff changeset
15 ##FORMAT=<ID=RDF,Number=1,Type=Integer,Description="Depth of reference-supporting bases on forward strand (reads1plus)">
799feac145c8 Uploaded
devteam
parents:
diff changeset
16 ##FORMAT=<ID=RDR,Number=1,Type=Integer,Description="Depth of reference-supporting bases on reverse strand (reads1minus)">
799feac145c8 Uploaded
devteam
parents:
diff changeset
17 ##FORMAT=<ID=SDP,Number=1,Type=Integer,Description="Raw Read Depth as reported by SAMtools">
799feac145c8 Uploaded
devteam
parents:
diff changeset
18 ##INFO=<ID=ADP,Number=1,Type=Integer,Description="Average per-sample depth of bases with Phred score >= 15">
799feac145c8 Uploaded
devteam
parents:
diff changeset
19 ##INFO=<ID=HET,Number=1,Type=Integer,Description="Number of samples called heterozygous-variant">
799feac145c8 Uploaded
devteam
parents:
diff changeset
20 ##INFO=<ID=HOM,Number=1,Type=Integer,Description="Number of samples called homozygous-variant">
799feac145c8 Uploaded
devteam
parents:
diff changeset
21 ##INFO=<ID=NC,Number=1,Type=Integer,Description="Number of samples not called">
799feac145c8 Uploaded
devteam
parents:
diff changeset
22 ##INFO=<ID=WT,Number=1,Type=Integer,Description="Number of samples called reference (wild-type)">
799feac145c8 Uploaded
devteam
parents:
diff changeset
23 ##source=VarScan2
799feac145c8 Uploaded
devteam
parents:
diff changeset
24 #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT Sample7
799feac145c8 Uploaded
devteam
parents:
diff changeset
25 chr1 14907 . A G . PASS ADP=18;HET=2;HOM=2;NC=1;WT=2 GT:GQ:SDP:DP:RD:AD:FREQ:PVAL:RBQ:ABQ:RDF:RDR:ADF:ADR 0/1:0:19:19:5:8:61.54%:9.8E-1:37:18:5:0:5:3