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    19 repositories

    • ArCH

      Public
      WDL
      •1•8•0•0•Updated Oct 2, 2024Oct 2, 2024

    • ch-toolkit

      Public
      A collection of utilities and tools used in the clonal hematopoiesis (CH) pipeline.
      Python
      •
      ISC License
      •0•1•0•0•Updated Jun 21, 2024Jun 21, 2024

    • CCR_Proteomics

      Public
      R
      •0•4•1•0•Updated Feb 7, 2024Feb 7, 2024

    • ChildhoodSurvivorship

      Public
      Repository to store public data and code to generate the figures for Blood Advances: "Clonal Hematopoiesis in Survivors of Childhood Cancer"
      0•0•0•0•Updated Jul 6, 2023Jul 6, 2023

    • docs

      Public
      Tools and docs on how to do things
      Jupyter Notebook
      •0•0•0•0•Updated Jun 26, 2023Jun 26, 2023

    • analysis-wdls

      Public
      Early stages of converting genome/analysis-workflows from CWL to WDL
      WDL
      •11•0•0•0•Updated Jan 27, 2023Jan 27, 2023

    • UKBB-air-pollution

      Public
      Replicating results showing air pollution and increased risk of lung cancer in UKBB cohort. Exploring air pollution and risk of developing CH.
      R
      •1•0•0•0•Updated Jan 19, 2023Jan 19, 2023

    • Bolton_OCCC

      Public
      Code to generate figures found in Bolton et al. Molecular subclasses of clear cell ovarian carcinoma and their impact on disease behavior and outcomes
      R
      •1•2•0•0•Updated Sep 21, 2022Sep 21, 2022

    • bolton_papers

      Public
      R
      •3•0•0•0•Updated Jan 21, 2022Jan 21, 2022

    • CH_2021

      Public
      Source code in "Combined landscape of single-nucleotide variants and copy-number alterations in clonal hematopoiesis".
      R
      •2•0•0•0•Updated Jan 21, 2022Jan 21, 2022

    • terra-wdls

      Public
      WDLs designed to be run on TERRA bio
      0•0•0•0•Updated Dec 9, 2021Dec 9, 2021

    • analysis-workflows

      Public
      Open workflow definitions for genomic analysis from MGI at WUSM.
      Common Workflow Language
      •
      MIT License
      •57•0•0•0•Updated Nov 15, 2021Nov 15, 2021

    • MAESTER_WDL

      Public
      WDL for MAESTER
      WDL
      •
      MIT License
      •2•0•0•0•Updated Nov 2, 2021Nov 2, 2021

    • Reference

      Public
      0•0•0•0•Updated Aug 6, 2021Aug 6, 2021

    • bioconda-recipes

      Public
      Conda recipes for the bioconda channel.
      Shell
      •3.2k•0•0•0•Updated Jul 7, 2021Jul 7, 2021

    • bolton_Nature_Genetics_CH

      Public
      Code for Kelly Bolton Nature Genetics Paper
      R
      •0•2•0•0•Updated May 7, 2021May 7, 2021

    • GetBaseCountsMultiSample

      Public
      C++
      •
      GNU Lesser General Public License v3.0
      •5•0•0•0•Updated Mar 30, 2021Mar 30, 2021

    • genome

      Public
      Core modules used by the GMS
      Perl
      •
      GNU Lesser General Public License v3.0
      •57•0•0•0•Updated Mar 10, 2021Mar 10, 2021

    • gatk

      Public
      Official code repository for GATK versions 1.0 through 3.7 (core engine). For GATK 4 code, see the https://github.com/broadinstitute/gatk repository
      Java
      •223•0•0•0•Updated Feb 8, 2021Feb 8, 2021