Mercurial > repos > iuc > bcftools_query

annotate test-data/merge.3.a.vcf @ 9:3d2e6a8a966c draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit 942ca2971ae6a72e548fde6186c6408a1e236653
author iuc
date Mon, 29 Jul 2019 18:12:14 -0400
parents 2fea169065ec
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
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2fea169065ec planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
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1 ##fileformat=VCFv4.1
2fea169065ec planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
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2 ##INFO=<ID=TEST,Number=1,Type=Integer,Description="Testing Tag">
2fea169065ec planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
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3 ##FORMAT=<ID=TT,Number=A,Type=Integer,Description="Testing Tag, with commas and \"escapes\" and escaped escapes combined with \\\"quotes\\\\\"">
2fea169065ec planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
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4 ##INFO=<ID=DP4,Number=4,Type=Integer,Description="# high-quality ref-forward bases, ref-reverse, alt-forward and alt-reverse bases">
2fea169065ec planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
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5 ##INFO=<ID=TR,Number=R,Type=Float,Description="Test tag">
2fea169065ec planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
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6 ##INFO=<ID=TA,Number=A,Type=Float,Description="Test tag">
2fea169065ec planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
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7 ##INFO=<ID=TG,Number=G,Type=Float,Description="Test tag">
2fea169065ec planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
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8 ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
2fea169065ec planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
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9 ##FORMAT=<ID=GQ,Number=1,Type=Integer,Description="Genotype Quality">
2fea169065ec planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
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10 ##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Read Depth">
2fea169065ec planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
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11 ##FORMAT=<ID=GL,Number=G,Type=Float,Description="Genotype Likelihood">
2fea169065ec planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
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12 ##FILTER=<ID=q10,Description="Quality below 10">
2fea169065ec planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
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13 ##FILTER=<ID=test,Description="Testing filter">
2fea169065ec planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
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14 ##contig=<ID=1,assembly=b37,length=249250621>
2fea169065ec planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
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15 ##contig=<ID=2,assembly=b37,length=249250621>
2fea169065ec planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
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16 ##contig=<ID=3,assembly=b37,length=198022430>
2fea169065ec planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
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17 ##contig=<ID=4,assembly=b37,length=191154276>
2fea169065ec planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
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18 ##reference=file:///lustre/scratch105/projects/g1k/ref/main_project/human_g1k_v37.fasta
2fea169065ec planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
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19 ##readme=AAAAAA
2fea169065ec planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
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20 ##readme=BBBBBB
2fea169065ec planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
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21 ##INFO=<ID=AC,Number=A,Type=Integer,Description="Allele count in genotypes">
2fea169065ec planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
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22 ##INFO=<ID=AN,Number=1,Type=Integer,Description="Total number of alleles in called genotypes">
2fea169065ec planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
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23 ##INFO=<ID=INDEL,Number=0,Type=Flag,Description="Indicates that the variant is an INDEL.">
2fea169065ec planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
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24 ##INFO=<ID=STR,Number=1,Type=String,Description="Test string type">
2fea169065ec planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
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25 #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT A B
2fea169065ec planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
iuc
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26 1 3000000 . C CCG 59.2 PASS AN=4;AC=2;TR=1,2;TA=1;TG=1,2,3 GT:GQ 0/1:245 0/1:245