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vcfhacks v0.2.1
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@david-a-parry david-a-parry released this 29 Mar 21:47
· 266 commits to master since this release
v.0.2.1
a70d3ac

Release Information

This release fixes some issues with the previous (v0.2.0) release and adds a small number of new features.

Changes

  • Fixes an issue which would prevent any scripts running with certain versions of perl
  • Added addFilterField.pl script for quickly tagging all variants in a VCF with a FILTER annotation
  • Fixed an issue with annovcfToSimple.pl not outputting the advertised default fields.
  • Prevented getVariantsByLocation.pl or geneAnnotator.pl from making too many REST queries in too short a time
  • Added --vcf_af and --min_af_counts options to findBiallelic.pl to allow filtering on alleles based on frequency within the input VCF
  • Added option to filterOnSample.pl to allow filtering on allele frequency only when a minimum number of alleles have been called (--min_alleles_for_freq)
  • filterOnSample.pl can now be run to filter on allele frequency without specifying --samples, --reject or --reject_except options
  • scripts that read a VCF index will now check age of index and warn if the index is older than the VCF
  • added a temporary fix for OMIM's new download arrangements to geneAnnotator.pl
  • rankOnCaddScore.pl now has --keep_unscored option for not filtering variants without a CADD score when using the --filter option
Assets 6
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