Mercurial > repos > iuc > bbtools_bbmap
view test-data/cv_output.vcf @ 8:517464809c33 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bbtools commit 35db9ac8668f3e376886ea09de63c87dce93e1ce
author | iuc |
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date | Tue, 30 May 2023 09:03:20 +0000 |
parents | 17ad142b56e6 |
children |
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##fileformat=VCFv4.2 ##BBMapVersion= ##ploidy=2 ##rarity=1.00000 ##minallelefraction=0.10000 ##reads=2207 ##pairedReads=0 ##properlyPairedReads=0 ##readLengthAvg= ##properPairRate=0.00000 ##totalQualityAvg= ##mapqAvg=43.348 ##reference= ##contig=<ID=NC_002945.4,length=7000> ##FILTER=<ID=FAIL,Description="Fail"> ##FILTER=<ID=PASS,Description="Pass"> ##INFO=<ID=SN,Number=1,Type=Integer,Description="Scaffold Number"> ##INFO=<ID=STA,Number=1,Type=Integer,Description="Start"> ##INFO=<ID=STO,Number=1,Type=Integer,Description="Stop"> ##INFO=<ID=TYP,Number=1,Type=String,Description="Type"> ##INFO=<ID=R1P,Number=1,Type=Integer,Description="Read1 Plus Count"> ##INFO=<ID=R1M,Number=1,Type=Integer,Description="Read1 Minus Count"> ##INFO=<ID=R2P,Number=1,Type=Integer,Description="Read2 Plus Count"> ##INFO=<ID=R2M,Number=1,Type=Integer,Description="Read2 Minus Count"> ##INFO=<ID=AD,Number=1,Type=Integer,Description="Allele Depth"> ##INFO=<ID=DP,Number=1,Type=Integer,Description="Total Depth"> ##INFO=<ID=MCOV,Number=1,Type=Integer,Description="Minus Coverage"> ##INFO=<ID=PPC,Number=1,Type=Integer,Description="Paired Count"> ##INFO=<ID=AF,Number=1,Type=Float,Description="Allele Fraction"> ##INFO=<ID=RAF,Number=1,Type=Float,Description="Revised Allele Fraction"> ##INFO=<ID=LS,Number=1,Type=Integer,Description="Length Sum"> ##INFO=<ID=MQS,Number=1,Type=Integer,Description="MAPQ Sum"> ##INFO=<ID=MQM,Number=1,Type=Integer,Description="MAPQ Max"> ##INFO=<ID=BQS,Number=1,Type=Integer,Description="Base Quality Sum"> ##INFO=<ID=BQM,Number=1,Type=Integer,Description="Base Quality Max"> ##INFO=<ID=EDS,Number=1,Type=Integer,Description="End Distance Sum"> ##INFO=<ID=EDM,Number=1,Type=Integer,Description="End Distance Max"> ##INFO=<ID=IDS,Number=1,Type=Integer,Description="Identity Sum"> ##INFO=<ID=IDM,Number=1,Type=Integer,Description="Identity Max"> ##INFO=<ID=NVC,Number=1,Type=Integer,Description="Nearby Variation Count"> ##INFO=<ID=FLG,Number=1,Type=Integer,Description="Flagged"> ##INFO=<ID=CED,Number=1,Type=Integer,Description="Contig End Distance"> ##INFO=<ID=HMP,Number=1,Type=Integer,Description="Homopolymer Count"> ##INFO=<ID=SB,Number=1,Type=Float,Description="Strand Bias"> ##INFO=<ID=DP4,Number=4,Type=Integer,Description="Ref+, Ref-, Alt+, Alt-"> ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype"> ##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Read Depth"> ##FORMAT=<ID=AD,Number=1,Type=Integer,Description="Allele Depth"> ##FORMAT=<ID=AF,Number=1,Type=Float,Description="Allele Fraction"> ##FORMAT=<ID=RAF,Number=1,Type=Float,Description="Revised Allele Fraction"> ##FORMAT=<ID=NVC,Number=1,Type=Integer,Description="Nearby Variation Count"> ##FORMAT=<ID=FLG,Number=1,Type=Integer,Description="Flagged"> ##FORMAT=<ID=SB,Number=1,Type=Float,Description="Strand Bias"> ##FORMAT=<ID=SC,Number=1,Type=Float,Description="Score"> ##FORMAT=<ID=PF,Number=1,Type=String,Description="Pass Filter"> #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT NC_002945.4 976327 . N T 22.21 PASS SN=0;STA=976326;STO=976327;TYP=SUB;R1P=2;R1M=0;R2P=0;R2M=0;AD=2;DP=2;MCOV=-1;PPC=0;AF=1.0000;RAF=1.0000;LS=292;MQS=77;MQM=40;BQS=48;BQM=24;EDS=111;EDM=65;IDS=1930;IDM=972;NVC=0;FLG=0;CED=0;HMP=0;SB=0.9980 GT:DP:AD:AF:RAF:NVC:FLG:SB:SC:PF 1/1:2:2:1.0000:1.0000:0:0:0.9980:22.21:PASS NC_002945.4 1501932 . N C 27.20 PASS SN=0;STA=1501931;STO=1501932;TYP=SUB;R1P=0;R1M=2;R2P=0;R2M=0;AD=2;DP=2;MCOV=-1;PPC=0;AF=1.0000;RAF=1.0000;LS=292;MQS=88;MQM=44;BQS=64;BQM=39;EDS=74;EDM=38;IDS=1986;IDM=993;NVC=0;FLG=0;CED=0;HMP=0;SB=0.9980 GT:DP:AD:AF:RAF:NVC:FLG:SB:SC:PF 1/1:2:2:1.0000:1.0000:0:0:0.9980:27.20:PASS NC_002945.4 3380579 . N G 27.85 PASS SN=0;STA=3380578;STO=3380579;TYP=SUB;R1P=0;R1M=2;R2P=0;R2M=0;AD=2;DP=2;MCOV=-1;PPC=0;AF=1.0000;RAF=1.0000;LS=289;MQS=87;MQM=44;BQS=75;BQM=38;EDS=105;EDM=63;IDS=1986;IDM=993;NVC=0;FLG=0;CED=0;HMP=0;SB=0.9980 GT:DP:AD:AF:RAF:NVC:FLG:SB:SC:PF 1/1:2:2:1.0000:1.0000:0:0:0.9980:27.85:PASS NC_002945.4 3646293 . N A 23.34 PASS SN=0;STA=3646292;STO=3646293;TYP=SUB;R1P=1;R1M=1;R2P=0;R2M=0;AD=2;DP=2;MCOV=-1;PPC=0;AF=1.0000;RAF=1.0000;LS=291;MQS=86;MQM=44;BQS=76;BQM=38;EDS=44;EDM=31;IDS=1986;IDM=993;NVC=0;FLG=0;CED=0;HMP=0;SB=1.0000 GT:DP:AD:AF:RAF:NVC:FLG:SB:SC:PF 1/1:2:2:1.0000:1.0000:0:0:1.0000:23.34:PASS