Mercurial > repos > iuc > bcftools_convert_to_vcf

annotate test-data/annotate3.vcf @ 11:8bb5efd7a3dd draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit 8f3fe2272c80fdb749db49be689681e4d1391bee"
author iuc
date Wed, 25 Dec 2019 12:25:07 -0500
parents b068ef999550
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
0
b068ef999550 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
diff changeset
1 ##fileformat=VCFv4.1
b068ef999550 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
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2 ##FILTER=<ID=PASS,Description="All filters passed">
b068ef999550 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
diff changeset
3 ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
b068ef999550 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
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4 ##FORMAT=<ID=PL,Number=G,Type=Integer,Description="Genotype LK">
b068ef999550 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
diff changeset
5 ##FORMAT=<ID=X,Number=1,Type=Integer,Description="rmme">
b068ef999550 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
diff changeset
6 ##FORMAT=<ID=Y,Number=1,Type=Integer,Description="rmme">
b068ef999550 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
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7 ##FORMAT=<ID=AA,Number=1,Type=Integer,Description="rmme">
b068ef999550 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
diff changeset
8 ##INFO=<ID=AA,Number=1,Type=Integer,Description="rmme">
b068ef999550 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
diff changeset
9 ##INFO=<ID=BB,Number=1,Type=Integer,Description="rmme">
b068ef999550 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
diff changeset
10 ##INFO=<ID=X,Number=1,Type=Integer,Description="rmme">
b068ef999550 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
diff changeset
11 ##INFO=<ID=Y,Number=1,Type=Integer,Description="rmme">
b068ef999550 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
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12 ##FILTER=<ID=fltA,Description="rmme">
b068ef999550 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
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13 ##FILTER=<ID=fltB,Description="rmme">
b068ef999550 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
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14 ##FILTER=<ID=fltX,Description="rmme">
b068ef999550 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
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15 ##FILTER=<ID=fltY,Description="rmme">
b068ef999550 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
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16 ##contig=<ID=1,assembly=b37,length=249250621>
b068ef999550 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
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17 ##reference=file:///lustre/scratch105/projects/g1k/ref/main_project/human_g1k_v37.fasta
b068ef999550 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
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18 #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT A B
b068ef999550 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
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19 1 3000000 id C . 20 . AA=1;BB=2;X=3;Y=4 GT:X:PL:Y:AA 0/1:1:2:3:1 0/1:1:2:3:1
b068ef999550 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
diff changeset
20 1 3000001 id C . 20 PASS AA=1;BB=2;X=3;Y=4 GT:X:PL:Y:AA 0/1:1:2:3:1 0/1:1:2:3:1
b068ef999550 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
parents:
diff changeset
21 1 3000002 id C . 20 fltY;fltA;fltB;fltX BB=2;X=3;Y=4;AA=1 GT:Y:X:PL:AA 0/1:3:1:2:1 0/1:3:1:2:1