Mercurial > repos > iuc > medaka_variant_pipeline

view test-data/annotated.vcf @ 3:148f32860445 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/medaka commit e80b649094384fc6d7a8f917300db3550cc99a44"
author iuc
date Tue, 01 Sep 2020 03:06:38 -0400
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##fileformat=VCFv4.1
##medaka_version=1.0.3
##contig=<ID=NC_045512.2>
##FORMAT=<ID=GT,Number=1,Type=String,Description="Medaka genotype.">
##FORMAT=<ID=GQ,Number=1,Type=Integer,Description="Medaka genotype quality score">
##annotateVCFVersion=0.1
##INFO=<ID=DP,Number=1,Type=Integer,Description="Raw Depth">
##INFO=<ID=AF,Number=1,Type=Float,Description="Allele Frequency">
##INFO=<ID=FAF,Number=1,Type=Float,Description="Forward Allele Frequency">
##INFO=<ID=RAF,Number=1,Type=Float,Description="Reverse Allele Frequency">
##INFO=<ID=SB,Number=1,Type=Integer,Description="Phred-scaled strand bias at this position">
##INFO=<ID=DP4,Number=4,Type=Integer,Description="Counts for ref-forward bases, ref-reverse, alt-forward and alt-reverse bases">
#CHROM	POS	ID	REF	ALT	QUAL	FILTER	INFO	FORMAT	SAMPLE
NC_045512.2	45	.	G	C	46.359	PASS	DP=31;AF=0.900000;FAF=0.937500;RAF=0.857143;SB=6;DP4=0,2,15,12	GT:GQ	1:46
NC_045512.2	685	.	AAAGTCATTT	A	260.487	PASS	DP=75;AF=0.880000;FAF=0.789474;RAF=0.972973;SB=0;DP4=0,0,30,36	GT:GQ	1:260
NC_045512.2	1813	.	TA	T	11.034	PASS	DP=51;AF=0.607843;FAF=0.521739;RAF=0.678571;SB=0;DP4=0,0,12,19	GT:GQ	1:11