Mercurial > repos > matthias > stacks2_shortreads

comparison test-data/populations/populations.snps.vcf @ 4:c23695f62bdd draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit 4e87a14a5479800df9675c1cbcdbe1b11f63653b-dirty
author matthias
date Wed, 27 Feb 2019 09:52:16 -0500
parents 061c9e133d1e
children 56d3555cf5f7
comparison
equal deleted inserted replaced
3:756e003f0eb1 4:c23695f62bdd
1 ##fileformat=VCFv4.2 1 ##fileformat=VCFv4.2
2 ##fileDate=20181128 2 ##fileDate=20190225
3 ##source="Stacks v2.2" 3 ##source="Stacks v2.3b"
4 ##INFO=<ID=AD,Number=R,Type=Integer,Description="Total Depth for Each Allele"> 4 ##INFO=<ID=AD,Number=R,Type=Integer,Description="Total Depth for Each Allele">
5 ##INFO=<ID=AF,Number=A,Type=Float,Description="Allele Frequency"> 5 ##INFO=<ID=AF,Number=A,Type=Float,Description="Allele Frequency">
6 ##INFO=<ID=DP,Number=1,Type=Integer,Description="Total Depth"> 6 ##INFO=<ID=DP,Number=1,Type=Integer,Description="Total Depth">
7 ##INFO=<ID=NS,Number=1,Type=Integer,Description="Number of Samples With Data"> 7 ##INFO=<ID=NS,Number=1,Type=Integer,Description="Number of Samples With Data">
8 ##FORMAT=<ID=AD,Number=R,Type=Integer,Description="Allele Depth"> 8 ##FORMAT=<ID=AD,Number=R,Type=Integer,Description="Allele Depth">
13 ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype"> 13 ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
14 ##INFO=<ID=loc_strand,Number=1,Type=Character,Description="Genomic strand the corresponding Stacks locus aligns on"> 14 ##INFO=<ID=loc_strand,Number=1,Type=Character,Description="Genomic strand the corresponding Stacks locus aligns on">
15 #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT PopA_01 PopA_02 15 #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT PopA_01 PopA_02
16 1 34 . A C . PASS NS=2;AF=0.500 GT:DP:AD:GQ:GL 0/1:18:9,9:40:-20.07,0.00,-20.07 0/1:12:6,6:40:-13.54,-0.00,-13.54 16 1 34 . A C . PASS NS=2;AF=0.500 GT:DP:AD:GQ:GL 0/1:18:9,9:40:-20.07,0.00,-20.07 0/1:12:6,6:40:-13.54,-0.00,-13.54
17 1 89 . A C . PASS NS=2;AF=0.500 GT:DP:AD:GQ:GL 0/1:18:9,9:40:-20.07,0.00,-20.07 0/1:12:6,6:40:-13.54,-0.00,-13.54 17 1 89 . A C . PASS NS=2;AF=0.500 GT:DP:AD:GQ:GL 0/1:18:9,9:40:-20.07,0.00,-20.07 0/1:12:6,6:40:-13.54,-0.00,-13.54
18 2 145 . C T . PASS NS=2;AF=0.500 GT:DP:AD:GQ:GL 0/1:17:9,8:40:-17.57,0.00,-20.29 0/1:13:5,8:40:-18.77,-0.00,-10.39
19 2 157 . G T . PASS NS=2;AF=0.500 GT:DP:AD:GQ:GL 0/1:17:9,8:40:-17.57,0.00,-20.29 0/1:13:5,8:40:-18.77,-0.00,-10.39
20 3 163 . G A . PASS NS=2;AF=0.250 GT:DP:AD:GQ:GL 0/0:23:23,0:40:-0.00,-6.89,-68.45 0/1:23:11,12:40:-28.67,0.00,-25.99
21 3 182 . G A . PASS NS=2;AF=0.250 GT:DP:AD:GQ:GL 0/0:23:23,0:40:-0.00,-6.89,-68.45 0/1:23:11,12:40:-28.67,0.00,-25.99