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@biowdl

BioWDL

Bioinformatics workflows and tasks, written in WDL.

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  1. tasks tasks Public

    A collection of reusable WDL tasks. Category:Other

    WDL 89 29

  2. RNA-seq RNA-seq Public

    A BioWDL pipeline for processing RNA-seq data, starting with FASTQ files to produce expression measures and VCFs. Category:Multi-Sample

    WDL 34 18

  3. germline-DNA germline-DNA Public

    A BioWDL variantcalling pipeline for germline DNA data. Starting with FASTQ files to produce VCF files. Category:Multi-Sample

    WDL 26 7

  4. wdl-packager wdl-packager Public

    Package a WDL and its imports into a zip file

    Python 7 2

  5. wdl-aid wdl-aid Public

    Automatic Input Documentation for WDL workflows

    Python 12 2

  6. ngs-performance-choices ngs-performance-choices Public

    Which tools to choose based on various performance metrics.

    12

Repositories

Showing 10 of 78 repositories
  • tasks Public

    A collection of reusable WDL tasks. Category:Other

    biowdl/tasks's past year of commit activity
    WDL 89 MIT 29 3 2 Updated Sep 29, 2026
  • swgs_hrd Public

    Shallow WGS HRD

    biowdl/swgs_hrd's past year of commit activity
    WDL 0 0 0 0 Updated Sep 24, 2026
  • docker-shallowhrd Public

    Docker image for shallowHRD

    biowdl/docker-shallowhrd's past year of commit activity
    Dockerfile 0 0 0 0 Updated Sep 8, 2026
  • germline-DNA Public

    A BioWDL variantcalling pipeline for germline DNA data. Starting with FASTQ files to produce VCF files. Category:Multi-Sample

    biowdl/germline-DNA's past year of commit activity
    WDL 26 MIT 7 0 1 Updated Jul 27, 2026
  • somatic-variantcalling Public

    A pipeline for somatic variantcalling. Category:Single-Sample

    biowdl/somatic-variantcalling's past year of commit activity
    WDL 8 MIT 1 0 0 Updated Jul 27, 2026
  • long-read-variant-calling Public

    Long read variant calling pipeline

    biowdl/long-read-variant-calling's past year of commit activity
    WDL 0 MIT 1 0 2 Updated Feb 10, 2026
  • docker-mutalyzer Public
    biowdl/docker-mutalyzer's past year of commit activity
    Dockerfile 0 EUPL-1.2 0 0 0 Updated Sep 17, 2025
  • docker-methylasso Public
    biowdl/docker-methylasso's past year of commit activity
    Dockerfile 0 0 0 0 Updated Jul 23, 2025
  • docker-flair-2.2.0 Public
    biowdl/docker-flair-2.2.0's past year of commit activity
    Dockerfile 0 EUPL-1.2 0 0 0 Updated Jul 23, 2025
  • clinical-validation Public

    Check if a VCF for a benchmark sample matches the given output.

    biowdl/clinical-validation's past year of commit activity
    WDL 1 MIT 0 0 1 Updated Apr 30, 2025
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