Mercurial > repos > matthias > stacks2_refmap

annotate test-data/populations/populations.haps.vcf @ 7:5b5af243ce5c draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit 82e7263f3e57a29362d981e36b82b82063f12ac3
author matthias
date Tue, 25 Jun 2019 10:55:53 -0400
parents 60687cc87548
children
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bd0bf17caa4d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit 98327d2948ae1ccb5aef5db9ab88605fd74a0de7-dirty
matthias
parents:
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1 ##fileformat=VCFv4.2
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60687cc87548 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit f507c4eaca0fe04e730d7c3bbb9e9d2488239a9f
matthias
parents: 5
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2 ##fileDate=20190617
60687cc87548 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit f507c4eaca0fe04e730d7c3bbb9e9d2488239a9f
matthias
parents: 5
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3 ##source="Stacks v2.4"
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bd0bf17caa4d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit 98327d2948ae1ccb5aef5db9ab88605fd74a0de7-dirty
matthias
parents:
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4 ##INFO=<ID=AD,Number=R,Type=Integer,Description="Total Depth for Each Allele">
bd0bf17caa4d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit 98327d2948ae1ccb5aef5db9ab88605fd74a0de7-dirty
matthias
parents:
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5 ##INFO=<ID=AF,Number=A,Type=Float,Description="Allele Frequency">
bd0bf17caa4d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit 98327d2948ae1ccb5aef5db9ab88605fd74a0de7-dirty
matthias
parents:
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6 ##INFO=<ID=DP,Number=1,Type=Integer,Description="Total Depth">
bd0bf17caa4d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit 98327d2948ae1ccb5aef5db9ab88605fd74a0de7-dirty
matthias
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7 ##INFO=<ID=NS,Number=1,Type=Integer,Description="Number of Samples With Data">
bd0bf17caa4d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit 98327d2948ae1ccb5aef5db9ab88605fd74a0de7-dirty
matthias
parents:
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8 ##FORMAT=<ID=AD,Number=R,Type=Integer,Description="Allele Depth">
bd0bf17caa4d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit 98327d2948ae1ccb5aef5db9ab88605fd74a0de7-dirty
matthias
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9 ##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Read Depth">
bd0bf17caa4d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit 98327d2948ae1ccb5aef5db9ab88605fd74a0de7-dirty
matthias
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10 ##FORMAT=<ID=HQ,Number=2,Type=Integer,Description="Haplotype Quality">
bd0bf17caa4d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit 98327d2948ae1ccb5aef5db9ab88605fd74a0de7-dirty
matthias
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11 ##FORMAT=<ID=GL,Number=G,Type=Float,Description="Genotype Likelihood">
bd0bf17caa4d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit 98327d2948ae1ccb5aef5db9ab88605fd74a0de7-dirty
matthias
parents:
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12 ##FORMAT=<ID=GQ,Number=1,Type=Integer,Description="Genotype Quality">
bd0bf17caa4d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit 98327d2948ae1ccb5aef5db9ab88605fd74a0de7-dirty
matthias
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13 ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
bd0bf17caa4d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit 98327d2948ae1ccb5aef5db9ab88605fd74a0de7-dirty
matthias
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14 ##INFO=<ID=loc_strand,Number=1,Type=Character,Description="Genomic strand the corresponding Stacks locus aligns on">
bd0bf17caa4d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit 98327d2948ae1ccb5aef5db9ab88605fd74a0de7-dirty
matthias
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15 #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT PopA_01 PopA_02
bd0bf17caa4d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit 98327d2948ae1ccb5aef5db9ab88605fd74a0de7-dirty
matthias
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16 1 1 . AC CA . PASS snp_columns=34,89 GT 0/1 0/1
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466cc910d640 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit 4e87a14a5479800df9675c1cbcdbe1b11f63653b-dirty
matthias
parents: 0
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17 2 1 . CG TT . PASS snp_columns=145,157 GT 0/1 0/1
466cc910d640 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit 4e87a14a5479800df9675c1cbcdbe1b11f63653b-dirty
matthias
parents: 0
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18 3 1 . GG AA . PASS snp_columns=163,182 GT 0/0 0/1