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comparison test-data/freebayes-phix174-test2.vcf @ 30:ef2c525bd8cd draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/freebayes commit 24f33bda62a7b6771ad42a39fe8c683e09f6d8b8"
author iuc
date Wed, 06 Nov 2019 17:02:57 -0500
parents 9f164587a92f
children 8a7a42541080
comparison
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29:156b60c1530f 30:ef2c525bd8cd
1 ##fileformat=VCFv4.2 1 ##fileformat=VCFv4.2
2 ##fileDate=20191031
3 ##source=freeBayes v1.3.1-dirty
2 ##reference=localref.fa 4 ##reference=localref.fa
3 ##contig=<ID=phiX174,length=5386> 5 ##contig=<ID=phiX174,length=5386>
4 ##phasing=none 6 ##phasing=none
5 ##commandline="freebayes --region phiX174:0..5386 --bam b_0.bam --fasta-reference localref.fa --vcf ./vcf_output/part_phiX174:0..5386.vcf --haplotype-length 0 --min-alternate-count 1 --min-alternate-fraction 0 --pooled-continuous --report-monomorphic --standard-filters --min-coverage 14" 7 ##commandline="freebayes --region phiX174:0..5386 --bam b_0.bam --fasta-reference localref.fa --vcf ./vcf_output/part_phiX174:0..5386.vcf --min-coverage 14 --skip-coverage 0 --limit-coverage 0 --haplotype-length 0 --min-alternate-count 1 --min-alternate-fraction 0.05 --pooled-continuous --report-monomorphic --standard-filters"
6 ##INFO=<ID=NS,Number=1,Type=Integer,Description="Number of samples with data"> 8 ##INFO=<ID=NS,Number=1,Type=Integer,Description="Number of samples with data">
7 ##INFO=<ID=DP,Number=1,Type=Integer,Description="Total read depth at the locus"> 9 ##INFO=<ID=DP,Number=1,Type=Integer,Description="Total read depth at the locus">
8 ##INFO=<ID=DPB,Number=1,Type=Float,Description="Total read depth per bp at the locus; bases in reads overlapping / bases in haplotype"> 10 ##INFO=<ID=DPB,Number=1,Type=Float,Description="Total read depth per bp at the locus; bases in reads overlapping / bases in haplotype">
9 ##INFO=<ID=AC,Number=A,Type=Integer,Description="Total number of alternate alleles in called genotypes"> 11 ##INFO=<ID=AC,Number=A,Type=Integer,Description="Total number of alternate alleles in called genotypes">
10 ##INFO=<ID=AN,Number=1,Type=Integer,Description="Total number of alleles in called genotypes"> 12 ##INFO=<ID=AN,Number=1,Type=Integer,Description="Total number of alleles in called genotypes">