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#bcftools — Public Fediverse posts

Live and recent posts from across the Fediverse tagged #bcftools, aggregated by home.social.

  1. Pierre Lindenbaum @[email protected] ·

    #bcftools #saperlipopette

    "constrained trio calling temporarily disabled"

    github.com/samtools/bcftools/b

    #bcftools #saperlipopette
  2. Luke Pembleton @[email protected] ·

    So after much community backlash #GATK has reverted back to the ./. representation for no-calls.

    The question is, will something like this occur again? and how many people have already switched away to other tools like #bcftools.

    I know I have moved all my pipelines back to bcftools and honestly its brilliant.

    #genomics #bioinformatics

    github.com/broadinstitute/gatk

    #gatk #bcftools #genomics #bioinformatics
  3. Luke Pembleton @[email protected] ·

    What’s everyone’s thoughts and experience on merging large numbers of gvcf files? Currently I’m running #bcftools merge, but as a tree merge process (multiple smaller merges that then get merged together). I’ve seen there is #IMMerge which is meant to have speed improvements. Are there any other tools or hacks people are using? 🧬

    #genomics #vcf #bioinformatics

    #bcftools #immerge #genomics #vcf #bioinformatics