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@getwilds Fred Hutch Data Science Lab WILDS

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    36 repositories

    • wilds-docker-library

      Public
      Collection of Docker images for use in WILDS bioinformatics workflows
      containerswilds-docker
      Dockerfile
      •
      MIT License
      •3•2•6•1•Updated Jun 25, 2025Jun 25, 2025

    • getwilds.github.io

      Public
      WILDS Website
      Lua
      •
      Creative Commons Zero v1.0 Universal
      •0•0•5•0•Updated Jun 24, 2025Jun 24, 2025

    • registry

      Public
      WILDS Repo Registry
      Python
      •0•0•1•0•Updated Jun 24, 2025Jun 24, 2025

    • wilds-wdl-library

      Public
      Collection of bioinformatics-related WDL workflow for use in WILDS
      WDL
      •
      MIT License
      •0•0•11•1•Updated Jun 24, 2025Jun 24, 2025

    • dasl-quarto

      Public
      Quarto template for FHCC DaSL HTML report
      HTML
      •0•0•0•2•Updated Jun 5, 2025Jun 5, 2025

    • ww-star-deseq2

      Public
      WILDS WDL workflow that executes STAR+DESeq2 on RNAseq data
      wdl-workflowwilds-wdl
      WDL
      •
      MIT License
      •0•0•1•0•Updated May 29, 2025May 29, 2025

    • ww-star

      Public
      WILDS WDL module for RNAseq alignment using STAR
      WDL
      •
      MIT License
      •0•0•0•0•Updated May 18, 2025May 18, 2025

    • ww-cnvkit

      Public
      WILDS WDL module for CNV detection using CNVkit
      WDL
      •
      MIT License
      •0•0•0•0•Updated May 12, 2025May 12, 2025

    • ww-sra

      Public
      WILDS WDL module for downloading genomic data using the SRA toolkit
      wdl-workflowwilds-wdl
      WDL
      •
      MIT License
      •0•0•2•0•Updated May 10, 2025May 10, 2025

    • ww-saturation

      Public
      Self-contained WDL workflow that performs saturation mutagenesis analysis
      WDL
      •
      MIT License
      •2•0•0•0•Updated Apr 14, 2025Apr 14, 2025

    • sixtyfour

      Public
      🚚 AWS for Data Scientists
      awsraws-billingrstatsr-pkgwilds-r
      R
      •
      Other
      •2•22•28•2•Updated Apr 10, 2025Apr 10, 2025

    • rules

      Public
      WILDS Rules
      Python
      •0•0•0•0•Updated Mar 22, 2025Mar 22, 2025

    • guide

      Public
      WILDS Dev Guide
      documentation
      Lua
      •
      Creative Commons Zero v1.0 Universal
      •1•3•9•1•Updated Mar 11, 2025Mar 11, 2025

    • .github

      Public
      0•0•1•0•Updated Mar 3, 2025Mar 3, 2025

    • ww-salmon

      Public
      Self-contained WDL workflow that uses the Salmon RNA-seq computational tool.
      wdl-workflowwilds-wdl
      WDL
      •
      MIT License
      •0•0•0•0•Updated Mar 1, 2025Mar 1, 2025

    • rls

      Public
      Row Level Security Functions for PostgreSQL and Redshift
      postgresqlrstatsredshiftrow-level-securitywilds-r
      R
      •
      Other
      •0•2•6•2•Updated Feb 4, 2025Feb 4, 2025

    • makefiles

      Public
      Makefile templates for WILDS projects
      utilities
      Makefile
      •0•0•1•0•Updated Feb 3, 2025Feb 3, 2025

    • oncarto

      Public
      🗺 A Map Room
      R
      •
      Other
      •0•2•4•0•Updated Jan 17, 2025Jan 17, 2025

    • ww-shapemapper

      Public
      Self-contained WDL workflow that uses Shapemapper
      wdl-workflowwilds-wdl
      WDL
      •
      MIT License
      •0•0•0•0•Updated Jan 9, 2025Jan 9, 2025

    • proof

      Public
      MIT License
      •0•0•22•0•Updated Dec 30, 2024Dec 30, 2024

    • ww-demo-workflows

      Public
      A repo containing workflows written in WDL to test using the Fred Hutch Cromwell configuration.
      wdl-workflowwilds-wdl
      WDL
      •
      MIT License
      •1•1•0•1•Updated Dec 16, 2024Dec 16, 2024

    • ww-sourmash

      Public
      Self-contained WDL workflow that uses Sourmash to perform similarity searches between sequence files.
      wdl-workflowwilds-wdl
      WDL
      •
      MIT License
      •0•0•0•0•Updated Dec 12, 2024Dec 12, 2024

    • proofr

      Public
      Client for the PROOF API
      r-packagewilds-r
      R
      •
      Other
      •9•1•1•1•Updated Dec 3, 2024Dec 3, 2024

    • personas

      Public
      CSS
      •
      Creative Commons Attribution 4.0 International
      •0•1•0•0•Updated Oct 7, 2024Oct 7, 2024

    • badges

      Public
      WILDS Badges
      utilities
      HTML
      •0•0•1•0•Updated Sep 25, 2024Sep 25, 2024

    • cancerprof

      Public
      API Client for State Cancer Profiles
      wilds-r
      R
      •
      Other
      •3•2•17•1•Updated Sep 25, 2024Sep 25, 2024

    • rcromwell

      Public
      R client for interacting with Cromwell with WDL workflows
      workflowrworkflow-enginerstatsr-packageworkflow-managementwilds-r
      R
      •
      Other
      •2•4•8•0•Updated Sep 17, 2024Sep 17, 2024

    • ww-sra-star

      Public
      Workflow to download paired fastqs from SRA and pass through STAR 2 pass
      wdl-workflowwilds-wdl
      WDL
      •
      MIT License
      •0•0•0•0•Updated Jul 9, 2024Jul 9, 2024

    • ww-cell-ranger

      Public
      A basic starting point for a cell ranger workflow
      wdl-workflowwilds-wdl
      WDL
      •
      MIT License
      •0•0•0•0•Updated Jul 8, 2024Jul 8, 2024

    • ww-fastq-to-cram

      Public
      Self-contained WDL workflow that converts a WGS FASTQ file into an unmapped CRAM file
      wdl-workflowwilds-wdl
      WDL
      •
      MIT License
      •0•0•0•0•Updated Jul 8, 2024Jul 8, 2024