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comparison test-data/vcf/test.vcf @ 96:5ef1ba2031f2 draft

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planemo upload for repository https://github.com/usegalaxy-eu/temporary-tools/tree/master/jbrowse2 commit 8e40627c0488fc1adf2b7d1e331ca65f533038b2
author fubar
date Thu, 25 Apr 2024 07:25:52 +0000
parents ab0d6782a95f
children
comparison
equal deleted inserted replaced
95:a0c848f00363 96:5ef1ba2031f2
1 ##fileformat=VCFv4.0
2 ##fileDate=20090805
3 ##source=myImputationProgramV3.1
4 ##reference=1000GenomesPilot-NCBI36
5 ##phasing=partial
6 ##INFO=<ID=NS,Number=1,Type=Integer,Description="Number of Samples With Data">
7 ##INFO=<ID=DP,Number=1,Type=Integer,Description="Total Depth">
8 ##INFO=<ID=AF,Number=.,Type=Float,Description="Allele Frequency">
9 ##INFO=<ID=AA,Number=1,Type=String,Description="Ancestral Allele">
10 ##INFO=<ID=DB,Number=0,Type=Flag,Description="dbSNP membership, build 129">
11 ##INFO=<ID=H2,Number=0,Type=Flag,Description="HapMap2 membership">
12 ##FILTER=<ID=q10,Description="Quality below 10">
13 ##FILTER=<ID=s50,Description="Less than 50% of samples have data">
14 ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
15 ##FORMAT=<ID=GQ,Number=1,Type=Integer,Description="Genotype Quality">
16 ##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Read Depth">
17 ##FORMAT=<ID=HQ,Number=2,Type=Integer,Description="Haplotype Quality">
18 #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT NA00001 NA00002 NA00003
19 Merlin 14370 rs6054257 G A 29 PASS NS=3;DP=14;AF=0.5;DB;H2 GT:GQ:DP:HQ 0|0:48:1:51,51 1|0:48:8:51,51 1/1:43:5:.,.
20 Merlin 17330 . T A 3 q10 NS=3;DP=11;AF=0.017 GT:GQ:DP:HQ 0|0:49:3:58,50 0|1:3:5:65,3 0/0:41:3
21 Merlin 1110696 rs6040355 A G,T 67 PASS NS=2;DP=10;AF=0.333,0.667;AA=T;DB GT:GQ:DP:HQ 1|2:21:6:23,27 2|1:2:0:18,2 2/2:35:4
22 Merlin 1230237 . T . 47 PASS NS=3;DP=13;AA=T GT:GQ:DP:HQ 0|0:54:7:56,60 0|0:48:4:51,51 0/0:61:2
23 Merlin 1234567 microsat1 GTCT G,GTACT 50 PASS NS=3;DP=9;AA=G GT:GQ:DP 0/1:35:4 0/2:17:2 1/1:40:3