Mercurial > repos > jjohnson > bcftools_plugin_missing2ref

annotate test-data/concat.3.a.vcf @ 0:ff65d6e0809b draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit 21c66fb27c7e2fd21c7f7607b3b29e77e64fb86d-dirty
author jjohnson
date Sat, 25 Jun 2016 20:51:04 -0400
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Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
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ff65d6e0809b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit 21c66fb27c7e2fd21c7f7607b3b29e77e64fb86d-dirty
jjohnson
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1 ##fileformat=VCFv4.0
ff65d6e0809b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit 21c66fb27c7e2fd21c7f7607b3b29e77e64fb86d-dirty
jjohnson
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2 ##INFO=<ID=DP,Number=1,Type=Integer,Description="Total Depth">
ff65d6e0809b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit 21c66fb27c7e2fd21c7f7607b3b29e77e64fb86d-dirty
jjohnson
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3 ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
ff65d6e0809b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit 21c66fb27c7e2fd21c7f7607b3b29e77e64fb86d-dirty
jjohnson
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4 ##FORMAT=<ID=GQ,Number=1,Type=Integer,Description="Genotype Quality">
ff65d6e0809b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit 21c66fb27c7e2fd21c7f7607b3b29e77e64fb86d-dirty
jjohnson
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5 ##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Read Depth">
ff65d6e0809b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit 21c66fb27c7e2fd21c7f7607b3b29e77e64fb86d-dirty
jjohnson
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6 ##FILTER=<ID=q10,Description="Quality below 10">
ff65d6e0809b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit 21c66fb27c7e2fd21c7f7607b3b29e77e64fb86d-dirty
jjohnson
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7 ##contig=<ID=9,length=62435964>
ff65d6e0809b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit 21c66fb27c7e2fd21c7f7607b3b29e77e64fb86d-dirty
jjohnson
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8 ##contig=<ID=1,length=62435964>
ff65d6e0809b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit 21c66fb27c7e2fd21c7f7607b3b29e77e64fb86d-dirty
jjohnson
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9 #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT A B
ff65d6e0809b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit 21c66fb27c7e2fd21c7f7607b3b29e77e64fb86d-dirty
jjohnson
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10 9 202 . GTTT G 1806 q10 DP=35 GT:GQ:DP 0|1:409:35 0|1
ff65d6e0809b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit 21c66fb27c7e2fd21c7f7607b3b29e77e64fb86d-dirty
jjohnson
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11 9 212 . C T,G 1792 PASS DP=32 GT:GQ:DP 0|1:245:32 0|1
ff65d6e0809b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit 21c66fb27c7e2fd21c7f7607b3b29e77e64fb86d-dirty
jjohnson
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12 9 212 . CAAA C 1792 PASS DP=32 GT:GQ:DP 0|1:245:32 0|1
ff65d6e0809b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit 21c66fb27c7e2fd21c7f7607b3b29e77e64fb86d-dirty
jjohnson
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13 9 222 . GA G 628 q10 DP=21 GT:GQ:DP 0|1:21:21 0|1
ff65d6e0809b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit 21c66fb27c7e2fd21c7f7607b3b29e77e64fb86d-dirty
jjohnson
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14 9 232 . G T 1016 PASS DP=22 GT:GQ:DP 0|1:212:22 0|1
ff65d6e0809b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit 21c66fb27c7e2fd21c7f7607b3b29e77e64fb86d-dirty
jjohnson
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15 9 232 . GAA GG 1016 PASS DP=22 GT:GQ:DP 0|1:212:22 0|1
ff65d6e0809b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit 21c66fb27c7e2fd21c7f7607b3b29e77e64fb86d-dirty
jjohnson
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16 9 242 . GT G 727 PASS DP=30 GT:GQ:DP 0|1:150:30 0|1
ff65d6e0809b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit 21c66fb27c7e2fd21c7f7607b3b29e77e64fb86d-dirty
jjohnson
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17 9 252 . TAAAA TA,T 246 PASS DP=10 GT:GQ:DP 0|1:12:10 0|1
ff65d6e0809b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit 21c66fb27c7e2fd21c7f7607b3b29e77e64fb86d-dirty
jjohnson
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18 9 262 . TAAAA TA,T 246 PASS DP=10 GT:GQ:DP 0|1:12:10 0|1
ff65d6e0809b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit 21c66fb27c7e2fd21c7f7607b3b29e77e64fb86d-dirty
jjohnson
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19 1 100 . GTTT G 1806 q10 DP=35 GT:GQ:DP 0|1:409:35 0|1
ff65d6e0809b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit 21c66fb27c7e2fd21c7f7607b3b29e77e64fb86d-dirty
jjohnson
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20 1 110 . C T,G 1792 PASS DP=32 GT:GQ:DP 0|1:245:32 0|1
ff65d6e0809b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit 21c66fb27c7e2fd21c7f7607b3b29e77e64fb86d-dirty
jjohnson
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21 1 110 . CAAA C 1792 PASS DP=32 GT:GQ:DP 0|1:245:32 0|1
ff65d6e0809b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit 21c66fb27c7e2fd21c7f7607b3b29e77e64fb86d-dirty
jjohnson
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22 1 120 . GA G 628 q10 DP=21 GT:GQ:DP 0|1:21:21 0|1
ff65d6e0809b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit 21c66fb27c7e2fd21c7f7607b3b29e77e64fb86d-dirty
jjohnson
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23 1 130 . G T 1016 PASS DP=22 GT:GQ:DP 0|1:212:22 0|1
ff65d6e0809b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit 21c66fb27c7e2fd21c7f7607b3b29e77e64fb86d-dirty
jjohnson
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24 1 130 . GAA GG 1016 PASS DP=22 GT:GQ:DP 0|1:212:22 0|1
ff65d6e0809b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit 21c66fb27c7e2fd21c7f7607b3b29e77e64fb86d-dirty
jjohnson
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25 1 140 . GT G 727 PASS DP=30 GT:GQ:DP 0|1:150:30 0|1
ff65d6e0809b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit 21c66fb27c7e2fd21c7f7607b3b29e77e64fb86d-dirty
jjohnson
parents:
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26 1 150 . TAAAA TA,T 246 PASS DP=10 GT:GQ:DP 0|1:12:10 0|1
ff65d6e0809b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit 21c66fb27c7e2fd21c7f7607b3b29e77e64fb86d-dirty
jjohnson
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27 1 160 . TAAAA TA,T 246 PASS DP=10 GT:GQ:DP 0|1:12:10 0|1