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860 followers · 178 following · 1k

Highlights

Organizations

@quinlan-lab

Sponsoring

@kortschak

Pinned

  1. slivar

    variant expressions, annotation, and filtering for great good.

    Nim 96 11

  2. mosdepth

    fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing

    Nim 352 61

  3. goleft

    goleft is a collection of bioinformatics tools distributed under MIT license in a single static binary

    Go 169 20

  4. hts-nim

    nim wrapper for htslib for parsing genomics data files

    Nim 128 20

  5. vcfanno

    annotate a VCF with other VCFs/BEDs/tabixed files

    Go 245 42

  6. somalier

    fast sample-swap and relatedness checks on BAMs/CRAMs/VCFs/GVCFs... "like damn that is one smart wine guy"

    Nim 118 14

962 contributions in the last year

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Contribution activity

October 2020

Created a pull request in brwnj/covviz that received 1 comment

Re use df

This has several optimizations including not writing the normalized dataframe and instead using it directly. It also uses numpy machinery in the ou…

+90 −41 • 1 comment

Created an issue in samtools/samtools that received 3 comments

mpileup: document effect of --max-depth

Is your feature request related to a problem? Please specify. It's unclear what happens when --max-depth (as specified to mpileup) is exceeded. Fro…

3 comments

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