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comparison test-data/output.vcf @ 3:918c8b94c8d8 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/deepvariant commit 95f18cd38ca051a3f5cfe456c1a8ef5fa21730d1
author iuc
date Mon, 10 Apr 2023 11:11:16 +0000
parents 98fe794d2ec0
children
comparison
equal deleted inserted replaced
2:98fe794d2ec0 3:918c8b94c8d8
10 ##FORMAT=<ID=MIN_DP,Number=1,Type=Integer,Description="Minimum DP observed within the GVCF block."> 10 ##FORMAT=<ID=MIN_DP,Number=1,Type=Integer,Description="Minimum DP observed within the GVCF block.">
11 ##FORMAT=<ID=AD,Number=R,Type=Integer,Description="Read depth for each allele"> 11 ##FORMAT=<ID=AD,Number=R,Type=Integer,Description="Read depth for each allele">
12 ##FORMAT=<ID=VAF,Number=A,Type=Float,Description="Variant allele fractions."> 12 ##FORMAT=<ID=VAF,Number=A,Type=Float,Description="Variant allele fractions.">
13 ##FORMAT=<ID=PL,Number=G,Type=Integer,Description="Phred-scaled genotype likelihoods rounded to the closest integer"> 13 ##FORMAT=<ID=PL,Number=G,Type=Integer,Description="Phred-scaled genotype likelihoods rounded to the closest integer">
14 ##FORMAT=<ID=MED_DP,Number=1,Type=Integer,Description="Median DP observed within the GVCF block rounded to the nearest integer."> 14 ##FORMAT=<ID=MED_DP,Number=1,Type=Integer,Description="Median DP observed within the GVCF block rounded to the nearest integer.">
15 ##DeepVariant_version=1.4.0 15 ##DeepVariant_version=1.5.0
16 ##contig=<ID=K03455,length=9719> 16 ##contig=<ID=K03455,length=9719>
17 #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT SRR8525881 17 #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT SRR8525881
18 K03455 2652 . G A 24.2 PASS . GT:GQ:DP:AD:VAF:PL 1/1:24:201:0,200:0.995025:24,35,0 18 K03455 2652 . G A 27.7 PASS . GT:GQ:DP:AD:VAF:PL 1/1:27:201:0,200:0.995025:27,33,0
19 K03455 2660 . T C 21.9 PASS . GT:GQ:DP:AD:VAF:PL 1/1:21:213:0,213:1:21,30,0 19 K03455 2660 . T C 30.3 PASS . GT:GQ:DP:AD:VAF:PL 1/1:29:213:0,213:1:30,34,0
20 K03455 2664 . A G 20.9 PASS . GT:GQ:DP:AD:VAF:PL 1/1:21:238:0,238:1:20,33,0 20 K03455 2664 . A G 24.1 PASS . GT:GQ:DP:AD:VAF:PL 1/1:24:238:0,238:1:24,32,0
21 K03455 2669 . G A 16.5 PASS . GT:GQ:DP:AD:VAF:PL 1/1:16:258:0,250:0.968992:16,33,0 21 K03455 2669 . G A 29.8 PASS . GT:GQ:DP:AD:VAF:PL 1/1:29:258:0,250:0.968992:29,36,0
22 K03455 2720 . T C 34.9 PASS . GT:GQ:DP:AD:VAF:PL 1/1:35:384:0,380:0.989583:34,49,0 22 K03455 2720 . T C 42.1 PASS . GT:GQ:DP:AD:VAF:PL 1/1:37:384:0,380:0.989583:42,38,0
23 K03455 2797 . G A 38.3 PASS . GT:GQ:DP:AD:VAF:PL 1/1:37:669:0,666:0.995516:38,43,0 23 K03455 2797 . G A 44.5 PASS . GT:GQ:DP:AD:VAF:PL 1/1:42:669:0,666:0.995516:44,46,0
24 K03455 2848 . T TA 39.4 PASS . GT:GQ:DP:AD:VAF:PL 1/1:36:820:85,704:0.858537:39,39,0 24 K03455 2848 . T TA 46.3 PASS . GT:GQ:DP:AD:VAF:PL 1/1:38:820:85,704:0.858537:46,38,0
25 K03455 2874 . C T 34.6 PASS . GT:GQ:DP:AD:VAF:PL 1/1:34:777:1,756:0.972973:34,46,0 25 K03455 2874 . C T 36.2 PASS . GT:GQ:DP:AD:VAF:PL 1/1:32:777:1,756:0.972973:36,34,0
26 K03455 2882 . G T 34.6 PASS . GT:GQ:DP:AD:VAF:PL 1/1:34:737:9,721:0.97829:34,47,0 26 K03455 2882 . G T 37.3 PASS . GT:GQ:DP:AD:VAF:PL 1/1:33:737:9,721:0.97829:37,34,0
27 K03455 2894 . T C 29.1 PASS . GT:GQ:DP:AD:VAF:PL 1/1:29:728:1,717:0.98489:29,51,0 27 K03455 2894 . T C 32.5 PASS . GT:GQ:DP:AD:VAF:PL 1/1:30:728:1,717:0.98489:32,34,0
28 K03455 2906 . C T 16 PASS . GT:GQ:DP:AD:VAF:PL 1/1:16:653:2,650:0.995406:15,33,0 28 K03455 2906 . C T 32.2 PASS . GT:GQ:DP:AD:VAF:PL 1/1:29:653:2,650:0.995406:32,31,0
29 K03455 2913 . G A 21.6 PASS . GT:GQ:DP:AD:VAF:PL 1/1:22:639:1,638:0.998435:21,40,0 29 K03455 2913 . G A 41.3 PASS . GT:GQ:DP:AD:VAF:PL 1/1:39:639:1,638:0.998435:41,42,0
30 K03455 2987 . C T 4.1 PASS . GT:GQ:DP:AD:VAF:PL 1/1:4:235:0,234:0.995745:1,21,0 30 K03455 2987 . C T 11.7 PASS . GT:GQ:DP:AD:VAF:PL 1/1:11:235:0,234:0.995745:11,23,0
31 K03455 3020 . A G 13.3 PASS . GT:GQ:DP:AD:VAF:PL 1/1:13:100:0,100:1:13,20,0 31 K03455 3020 . A G 0.8 RefCall . GT:GQ:DP:AD:VAF:PL ./.:8:100:0,100:1:0,26,7
32 K03455 3042 . A C 0 RefCall . GT:GQ:DP:AD:VAF:PL 0/0:32:12:9,3:0.25:0,36,33 32 K03455 3042 . A C 0 RefCall . GT:GQ:DP:AD:VAF:PL 0/0:37:12:9,3:0.25:0,41,39