Mercurial > repos > iuc > bcftools_plugin_fill_tags
annotate test-data/isec.b.vcf @ 22:b10d1510fa84 draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit 784611c9caf2680d41414ca2880b93a69d719701
author | iuc |
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date | Sun, 18 Aug 2024 10:19:09 +0000 |
parents | d7cba58e3b72 |
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d7cba58e3b72
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
diff
changeset
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1 ##fileformat=VCFv4.1 |
d7cba58e3b72
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
diff
changeset
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2 ##INFO=<ID=DP,Number=1,Type=Integer,Description="Total Depth"> |
d7cba58e3b72
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
diff
changeset
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3 ##INFO=<ID=DP4,Number=4,Type=Integer,Description="# high-quality ref-forward bases, ref-reverse, alt-forward and alt-reverse bases"> |
d7cba58e3b72
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
diff
changeset
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4 ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype"> |
d7cba58e3b72
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
diff
changeset
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5 ##FORMAT=<ID=GQ,Number=1,Type=Integer,Description="Genotype Quality"> |
d7cba58e3b72
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
diff
changeset
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6 ##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Read Depth"> |
d7cba58e3b72
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
diff
changeset
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7 ##FORMAT=<ID=GL,Number=G,Type=Float,Description="Genotype Likelihood"> |
d7cba58e3b72
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
diff
changeset
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8 ##FILTER=<ID=q20,Description="Mapping quality below 20"> |
d7cba58e3b72
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
diff
changeset
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9 ##contig=<ID=1,assembly=b37,length=249250621> |
d7cba58e3b72
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
diff
changeset
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10 ##contig=<ID=2,assembly=b37,length=243199373> |
d7cba58e3b72
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
diff
changeset
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11 ##contig=<ID=3,assembly=b37,length=198022430> |
d7cba58e3b72
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
diff
changeset
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12 ##contig=<ID=4,assembly=b37,length=191154276> |
d7cba58e3b72
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
diff
changeset
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13 ##reference=file:///lustre/scratch105/projects/g1k/ref/main_project/human_g1k_v37.fasta |
d7cba58e3b72
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
diff
changeset
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14 ##INFO=<ID=AC,Number=A,Type=Integer,Description="Allele count in genotypes"> |
d7cba58e3b72
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
diff
changeset
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15 ##INFO=<ID=AN,Number=1,Type=Integer,Description="Total number of alleles in called genotypes"> |
d7cba58e3b72
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
diff
changeset
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16 #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT B |
d7cba58e3b72
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
diff
changeset
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17 1 3062915 . G A 376 q20 DP=14;DP4=1,2,3,4;AN=2;AC=1 GT:GQ:DP:GL 0/1:376:14:-10,0,-10 |
d7cba58e3b72
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
diff
changeset
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18 1 3062915 . GTTT GT 376 q20 DP=14;DP4=1,2,3,4;AN=2;AC=1 GT:GQ:DP:GL 0/1:376:14:-10,0,-10 |
d7cba58e3b72
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
diff
changeset
|
19 1 3106154 . C T 677 PASS DP=15;AN=2;AC=1 GT:GQ:DP:GL 0/1:277:15:-10,0,-10 |
d7cba58e3b72
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
diff
changeset
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20 1 3106154 . CAAAA C 677 PASS DP=15;AN=2;AC=1 GT:GQ:DP:GL 0/1:277:15:-10,0,-10 |
d7cba58e3b72
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
diff
changeset
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21 1 3157410 . GA G 249 PASS DP=11;AN=2;AC=1 GT:GQ:DP 0/1:49:11 |
d7cba58e3b72
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
diff
changeset
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22 1 3162006 . GAA G 663 PASS DP=19;AN=2;AC=1 GT:GQ:DP 0/1:589:19 |
d7cba58e3b72
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
diff
changeset
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23 1 3177144 . GT G 460 PASS DP=24;AN=2;AC=1 GT:GQ:DP 0/1:236:24 |
d7cba58e3b72
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
diff
changeset
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24 1 3184885 . TAAA T 598 PASS DP=16;AN=2;AC=1 GT:GQ:DP 0/1:435:16 |
d7cba58e3b72
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
diff
changeset
|
25 2 3188209 . GA G 162 . DP=15;AN=2;AC=1 GT:GQ:DP 0/1:162:15 |
d7cba58e3b72
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
diff
changeset
|
26 3 3199812 . G GTT,GT 353 PASS DP=19;AN=2;AC=1,1 GT:GQ:DP 1/2:188:19 |
d7cba58e3b72
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
diff
changeset
|
27 4 3212016 . CTT C 677 q20 DP=15;AN=2;AC=1 GT:GQ:DP 0/1:158:15 |