Mercurial > repos > jjohnson > bcftools_convert_from_vcf
diff test-data/isec.a.vcf @ 0:d396503fdbdb 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 20:47:20 -0400 |
| parents | |
| children |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/isec.a.vcf Sat Jun 25 20:47:20 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=q10,Description="Quality below 10"> +##test=<xx=A,yy=B,zz=C> +##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"> +##readme=AAAAAA +##readme=BBBBBB +#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT A +1 3062915 . GTTT G 1806 q10 DP=35;DP4=1,2,3,4;AN=2;AC=1 GT:GQ:DP:GL 0/1:409:35:-20,-5,-20 +1 3062915 . G T 1806 q10 DP=35;DP4=1,2,3,4;AN=2;AC=1 GT:GQ:DP:GL 0/1:409:35:-20,-5,-20 +1 3106154 . CAAA C 1792 PASS DP=32;AN=2;AC=1 GT:GQ:DP 0/1:245:32 +1 3106154 . C T,CT 1792 PASS DP=32;AN=2;AC=1 GT:GQ:DP 0/1:245:32 +1 3157410 . GA G 628 q10 DP=21;AN=2;AC=2 GT:GQ:DP 1/1:21:21 +1 3162006 . GAA G 1016 PASS DP=22;AN=2;AC=1 GT:GQ:DP 0/1:212:22 +1 3177144 . GT G 727 PASS DP=30;AN=2;AC=1 GT:GQ:DP 0/1:150:30 +1 3184885 . TAAAA TA,T 246 PASS DP=10;AN=2;AC=1,1 GT:GQ:DP 1/2:12:10 +2 3199812 . G GTT,GT 481 PASS DP=26;AN=2;AC=1,1 GT:GQ:DP 1/2:322:26 +3 3212016 . CTT C,CT 565 PASS DP=26;AN=2;AC=1,1 GT:GQ:DP 1/2:91:26 +4 3212016 . TACACACAC T 325 PASS DP=31;AN=2;AC=1 GT:GQ:DP 0/1:325:31 +4 3258448 . TACACACAC T 325 PASS DP=31;AN=2;AC=1 GT:GQ:DP 0/1:325:31