Mercurial > repos > iuc > stacks2_refmap
annotate test-data/populations/populations.haps.vcf @ 0:45385ba40a75 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit b395fa36fa826e26085820ba3a9faacaeddcb460
author | iuc |
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date | Mon, 01 Jul 2019 11:03:22 -0400 |
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45385ba40a75
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit b395fa36fa826e26085820ba3a9faacaeddcb460
iuc
parents:
diff
changeset
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1 ##fileformat=VCFv4.2 |
45385ba40a75
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit b395fa36fa826e26085820ba3a9faacaeddcb460
iuc
parents:
diff
changeset
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2 ##fileDate=20190617 |
45385ba40a75
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit b395fa36fa826e26085820ba3a9faacaeddcb460
iuc
parents:
diff
changeset
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3 ##source="Stacks v2.4" |
45385ba40a75
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit b395fa36fa826e26085820ba3a9faacaeddcb460
iuc
parents:
diff
changeset
|
4 ##INFO=<ID=AD,Number=R,Type=Integer,Description="Total Depth for Each Allele"> |
45385ba40a75
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit b395fa36fa826e26085820ba3a9faacaeddcb460
iuc
parents:
diff
changeset
|
5 ##INFO=<ID=AF,Number=A,Type=Float,Description="Allele Frequency"> |
45385ba40a75
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit b395fa36fa826e26085820ba3a9faacaeddcb460
iuc
parents:
diff
changeset
|
6 ##INFO=<ID=DP,Number=1,Type=Integer,Description="Total Depth"> |
45385ba40a75
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit b395fa36fa826e26085820ba3a9faacaeddcb460
iuc
parents:
diff
changeset
|
7 ##INFO=<ID=NS,Number=1,Type=Integer,Description="Number of Samples With Data"> |
45385ba40a75
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit b395fa36fa826e26085820ba3a9faacaeddcb460
iuc
parents:
diff
changeset
|
8 ##FORMAT=<ID=AD,Number=R,Type=Integer,Description="Allele Depth"> |
45385ba40a75
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit b395fa36fa826e26085820ba3a9faacaeddcb460
iuc
parents:
diff
changeset
|
9 ##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Read Depth"> |
45385ba40a75
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit b395fa36fa826e26085820ba3a9faacaeddcb460
iuc
parents:
diff
changeset
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10 ##FORMAT=<ID=HQ,Number=2,Type=Integer,Description="Haplotype Quality"> |
45385ba40a75
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit b395fa36fa826e26085820ba3a9faacaeddcb460
iuc
parents:
diff
changeset
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11 ##FORMAT=<ID=GL,Number=G,Type=Float,Description="Genotype Likelihood"> |
45385ba40a75
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit b395fa36fa826e26085820ba3a9faacaeddcb460
iuc
parents:
diff
changeset
|
12 ##FORMAT=<ID=GQ,Number=1,Type=Integer,Description="Genotype Quality"> |
45385ba40a75
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit b395fa36fa826e26085820ba3a9faacaeddcb460
iuc
parents:
diff
changeset
|
13 ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype"> |
45385ba40a75
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit b395fa36fa826e26085820ba3a9faacaeddcb460
iuc
parents:
diff
changeset
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14 ##INFO=<ID=loc_strand,Number=1,Type=Character,Description="Genomic strand the corresponding Stacks locus aligns on"> |
45385ba40a75
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit b395fa36fa826e26085820ba3a9faacaeddcb460
iuc
parents:
diff
changeset
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15 #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT PopA_01 PopA_02 |
45385ba40a75
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit b395fa36fa826e26085820ba3a9faacaeddcb460
iuc
parents:
diff
changeset
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16 1 1 . AC CA . PASS snp_columns=34,89 GT 0/1 0/1 |
45385ba40a75
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit b395fa36fa826e26085820ba3a9faacaeddcb460
iuc
parents:
diff
changeset
|
17 2 1 . CG TT . PASS snp_columns=145,157 GT 0/1 0/1 |
45385ba40a75
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit b395fa36fa826e26085820ba3a9faacaeddcb460
iuc
parents:
diff
changeset
|
18 3 1 . GG AA . PASS snp_columns=163,182 GT 0/0 0/1 |