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diff 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
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--- a/test-data/freebayes-phix174-test2.vcf	Wed Oct 25 08:29:45 2017 -0400
+++ b/test-data/freebayes-phix174-test2.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">