Mercurial > repos > devteam > freebayes
diff test-data/freebayes-phix174-test3.vcf @ 30:ef2c525bd8cd draft
"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 |
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--- a/test-data/freebayes-phix174-test3.vcf Wed Oct 25 08:29:45 2017 -0400 +++ b/test-data/freebayes-phix174-test3.vcf Wed Nov 06 17:02:57 2019 -0500 @@ -1,8 +1,10 @@ ##fileformat=VCFv4.2 +##fileDate=20191031 +##source=freeBayes v1.3.1-dirty ##reference=localref.fa ##contig=<ID=phiX174,length=5386> ##phasing=none -##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" +##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" ##INFO=<ID=NS,Number=1,Type=Integer,Description="Number of samples with data"> ##INFO=<ID=DP,Number=1,Type=Integer,Description="Total read depth at the locus"> ##INFO=<ID=DPB,Number=1,Type=Float,Description="Total read depth per bp at the locus; bases in reads overlapping / bases in haplotype">