Mercurial > repos > devteam > vcftools_isec

annotate test-data/1.vcf @ 1:aa232e38338f draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/vcftools/vcftools_isec commit a1517c9d22029095120643bbe2c8fa53754dd2b7
author devteam
date Wed, 11 Nov 2015 13:02:25 -0500
parents 026d0f104183
children
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1 ##fileformat=VCFv4.1
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2 ##FILTER=<ID=indelError,Description="Likely artifact due to indel reads at this position">
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3 ##FILTER=<ID=str10,Description="Less than 10% or more than 90% of variant supporting reads on one strand">
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4 ##FORMAT=<ID=ABQ,Number=1,Type=Integer,Description="Average quality of variant-supporting bases (qual2)">
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5 ##FORMAT=<ID=AD,Number=1,Type=Integer,Description="Depth of variant-supporting bases (reads2)">
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6 ##FORMAT=<ID=ADF,Number=1,Type=Integer,Description="Depth of variant-supporting bases on forward strand (reads2plus)">
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7 ##FORMAT=<ID=ADR,Number=1,Type=Integer,Description="Depth of variant-supporting bases on reverse strand (reads2minus)">
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8 ##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Quality Read Depth of bases with Phred score >= 15">
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9 ##FORMAT=<ID=FREQ,Number=1,Type=String,Description="Variant allele frequency">
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10 ##FORMAT=<ID=GQ,Number=1,Type=Integer,Description="Genotype Quality">
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11 ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
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12 ##FORMAT=<ID=PVAL,Number=1,Type=String,Description="P-value from Fisher's Exact Test">
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13 ##FORMAT=<ID=RBQ,Number=1,Type=Integer,Description="Average quality of reference-supporting bases (qual1)">
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14 ##FORMAT=<ID=RD,Number=1,Type=Integer,Description="Depth of reference-supporting bases (reads1)">
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15 ##FORMAT=<ID=RDF,Number=1,Type=Integer,Description="Depth of reference-supporting bases on forward strand (reads1plus)">
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16 ##FORMAT=<ID=RDR,Number=1,Type=Integer,Description="Depth of reference-supporting bases on reverse strand (reads1minus)">
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17 ##FORMAT=<ID=SDP,Number=1,Type=Integer,Description="Raw Read Depth as reported by SAMtools">
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18 ##INFO=<ID=ADP,Number=1,Type=Integer,Description="Average per-sample depth of bases with Phred score >= 15">
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19 ##INFO=<ID=HET,Number=1,Type=Integer,Description="Number of samples called heterozygous-variant">
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20 ##INFO=<ID=HOM,Number=1,Type=Integer,Description="Number of samples called homozygous-variant">
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21 ##INFO=<ID=NC,Number=1,Type=Integer,Description="Number of samples not called">
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22 ##INFO=<ID=WT,Number=1,Type=Integer,Description="Number of samples called reference (wild-type)">
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23 ##source=VarScan2
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24 #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT Sample7
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25 chr1 14653 . C T . PASS ADP=30;HET=7;HOM=0;NC=0;WT=0 GT:GQ:SDP:DP:RD:AD:FREQ:PVAL:RBQ:ABQ:RDF:RDR:ADF:ADR 0/1:0:18:18:13:5:27.78%:9.8E-1:37:38:7:6:5:0
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26 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
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27 chr1 14930 . A G . PASS ADP=19;HET=2;HOM=2;NC=1;WT=2 GT:GQ:SDP:DP:RD:AD:FREQ:PVAL:RBQ:ABQ:RDF:RDR:ADF:ADR 0/1:0:24:22:5:11:68.75%:9.8E-1:35:24:4:1:5:6