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view test-data/discosnp/vcf_file_paired.vcf @ 3:74878f127e47 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit 45e32ab41e7cdc4e3dabe87f074f052667c22574"
author iuc
date Wed, 22 Jan 2020 17:27:07 -0500
parents 13c8e1ce0a15
children 435a98f01ae9
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##fileformat=VCFv4.1
##filedate=2017102
##source=VCF_creator
##SAMPLE=file://discoRes_k_31_c_auto_D_0_P_1_b_0_coherentBWA_MEM.sam
##REF=<ID=REF,Number=1,Type=String,Description="Allele of the path Disco aligned with the least mismatches">
##FILTER=<ID=MULTIPLE,Description="Mapping type : PASS or MULTIPLE or .">
##INFO=<ID=Ty,Number=1,Type=String,Description="SNP, INS, DEL or .">
##INFO=<ID=Rk,Number=1,Type=Float,Description="SNP rank">
##INFO=<ID=UL,Number=1,Type=Integer,Description="length of the unitig left">
##INFO=<ID=UR,Number=1,Type=Integer,Description="length of the unitig right">
##INFO=<ID=CL,Number=1,Type=Integer,Description="length of the contig left">
##INFO=<ID=CR,Number=1,Type=Integer,Description="length of the contig right">
##INFO=<ID=Genome,Number=1,Type=String,Description="Allele of the reference;for indel reference is . ">
##INFO=<ID=Sd,Number=1,Type=Integer,Description="Reverse (-1) or Forward (1) Alignement">
##INFO=<ID=XA,Number=0/1,Type=String,Description="Other mapping positions (chromosome_position). Position is negative in case of Reverse alignment. The position designs the starting position of the alignment, not the position of the variant itself.">
##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Cumulated depth accross samples (sum)">
##FORMAT=<ID=PL,Number=G,Type=Integer,Description="Phred-scaled Genotype Likelihoods">
##FORMAT=<ID=AD,Number=2,Type=Integer,Description="Depth of each allele by sample">
##FORMAT=<ID=HQ,Number=2,Type=Integer,Description="Haplotype Quality">
#CHROM	POS	ID	REF	ALT	QUAL	FILTER	INFO	FORMAT	G1
read661_contig0_position139_M0_I0_D0_NG0______er0__indel0__rgeom0_rev0	62	3	C	G	.	MULTIPLE	Ty=SNP;Rk=0;UL=.;UR=.;CL=.;CR=.;Genome=C;Sd=1	GT:DP:PL:AD:HQ	0/1:258:1927,18,1727:124,134:0,0
read780_contig0_position26_M0_I0_D0_NG0______er0__indel0__rgeom0_rev1	43	2	A	T	.	MULTIPLE	Ty=SNP;Rk=0;UL=.;UR=.;CL=.;CR=.;Genome=A;Sd=1	GT:DP:PL:AD:HQ	0/1:160:1260,18,1020:74,86:0,0
read656_contig0_position454_M0_I0_D0_NG0______er0__indel0__rgeom0_rev1	62	1	T	A	.	MULTIPLE	Ty=SNP;Rk=0;UL=.;UR=.;CL=.;CR=.;Genome=T;Sd=1	GT:DP:PL:AD:HQ	0/1:224:1628,17,1548:110,114:0,0