Mercurial > repos > jjohnson > bcftools_plugin_counts
diff test-data/isec.b.vcf @ 0:17b407921818 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit 21c66fb27c7e2fd21c7f7607b3b29e77e64fb86d-dirty
| author | jjohnson |
|---|---|
| date | Sat, 25 Jun 2016 20:49:12 -0400 |
| parents | |
| children |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/isec.b.vcf Sat Jun 25 20:49:12 2016 -0400 @@ -0,0 +1,27 @@ +##fileformat=VCFv4.1 +##INFO=<ID=DP,Number=1,Type=Integer,Description="Total Depth"> +##INFO=<ID=DP4,Number=4,Type=Integer,Description="# high-quality ref-forward bases, ref-reverse, alt-forward and alt-reverse bases"> +##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype"> +##FORMAT=<ID=GQ,Number=1,Type=Integer,Description="Genotype Quality"> +##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Read Depth"> +##FORMAT=<ID=GL,Number=G,Type=Float,Description="Genotype Likelihood"> +##FILTER=<ID=q20,Description="Mapping quality below 20"> +##contig=<ID=1,assembly=b37,length=249250621> +##contig=<ID=2,assembly=b37,length=243199373> +##contig=<ID=3,assembly=b37,length=198022430> +##contig=<ID=4,assembly=b37,length=191154276> +##reference=file:///lustre/scratch105/projects/g1k/ref/main_project/human_g1k_v37.fasta +##INFO=<ID=AC,Number=A,Type=Integer,Description="Allele count in genotypes"> +##INFO=<ID=AN,Number=1,Type=Integer,Description="Total number of alleles in called genotypes"> +#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT B +1 3062915 . G A 376 q20 DP=14;DP4=1,2,3,4;AN=2;AC=1 GT:GQ:DP:GL 0/1:376:14:-10,0,-10 +1 3062915 . GTTT GT 376 q20 DP=14;DP4=1,2,3,4;AN=2;AC=1 GT:GQ:DP:GL 0/1:376:14:-10,0,-10 +1 3106154 . C T 677 PASS DP=15;AN=2;AC=1 GT:GQ:DP:GL 0/1:277:15:-10,0,-10 +1 3106154 . CAAAA C 677 PASS DP=15;AN=2;AC=1 GT:GQ:DP:GL 0/1:277:15:-10,0,-10 +1 3157410 . GA G 249 PASS DP=11;AN=2;AC=1 GT:GQ:DP 0/1:49:11 +1 3162006 . GAA G 663 PASS DP=19;AN=2;AC=1 GT:GQ:DP 0/1:589:19 +1 3177144 . GT G 460 PASS DP=24;AN=2;AC=1 GT:GQ:DP 0/1:236:24 +1 3184885 . TAAA T 598 PASS DP=16;AN=2;AC=1 GT:GQ:DP 0/1:435:16 +2 3188209 . GA G 162 . DP=15;AN=2;AC=1 GT:GQ:DP 0/1:162:15 +3 3199812 . G GTT,GT 353 PASS DP=19;AN=2;AC=1,1 GT:GQ:DP 1/2:188:19 +4 3212016 . CTT C 677 q20 DP=15;AN=2;AC=1 GT:GQ:DP 0/1:158:15