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    83 repositories

    • django-anvil-consortium-manager

      Public
      Django app to manage AnVIL workspace permissions
      Python
      •
      MIT License
      •0•1•26•1•Updated Jan 10, 2025Jan 10, 2025

    • gregor_data_models

      Public
      A repository for version control of consortium data model(s)
      Jupyter Notebook
      •
      MIT License
      •3•10•12•0•Updated Jan 10, 2025Jan 10, 2025

    • gregor-django

      Public
      GREGoR Consortium Django application website
      Python
      •
      MIT License
      •0•0•7•4•Updated Jan 10, 2025Jan 10, 2025

    • primed-django

      Public
      PRIMED Consortium Django application website
      Python
      •
      MIT License
      •0•0•10•3•Updated Jan 10, 2025Jan 10, 2025

    • primed-file-conversion

      Public
      PRIMED file conversion workflows
      WDL
      •1•1•0•0•Updated Jan 9, 2025Jan 9, 2025

    • parse-dbgap-application

      Public
      Python code to parse DARs out of a dbGaP application PDF
      Python
      •
      MIT License
      •0•0•0•0•Updated Jan 8, 2025Jan 8, 2025

    • pgsc_calc_wdl

      Public
      WDL wrapper for the pgsc_calc workflow
      WDL
      •1•0•2•0•Updated Jan 8, 2025Jan 8, 2025

    • gregor-data-tracking

      Public
      Code to support data tracking and reporting for GREGoR
      Jupyter Notebook
      •0•1•1•0•Updated Jan 7, 2025Jan 7, 2025

    • primed_example_notebooks

      Public
      Example notebooks for working with PRIMED data in AnVIL workspaces
      HTML
      •0•1•0•0•Updated Jan 7, 2025Jan 7, 2025

    • primed-bcftools

      Public
      WDL
      •0•0•0•0•Updated Dec 31, 2024Dec 31, 2024

    • gregor_wgs_processing

      Public
      wgs reprocessing scripts
      WDL
      •0•0•0•0•Updated Dec 30, 2024Dec 30, 2024

    • primed-file-checks

      Public
      PRIMED file checking workflows
      WDL
      •0•0•2•0•Updated Dec 5, 2024Dec 5, 2024

    • anvil-util-workflows

      Public
      Utilities for checking files in AnVIL
      WDL
      •2•0•2•0•Updated Dec 3, 2024Dec 3, 2024

    • dbgap_xml_parser

      Public
      R
      •0•0•1•0•Updated Nov 21, 2024Nov 21, 2024

    • gregor_example_notebooks

      Public
      Example notebooks and code for working with GREGoR data in AnVIL workspaces.
      R
      •
      MIT License
      •0•0•2•0•Updated Nov 12, 2024Nov 12, 2024

    • pip-tools-actions

      Public
      Github actions for pip-tools
      MIT License
      •0•1•0•0•Updated Nov 7, 2024Nov 7, 2024

    • GENESIS

      Public
      GENetic EStimation and Inference in Structured samples (GENESIS): Statistical methods for analyzing genetic data from samples with population structure and/or relatedness
      R
      •14•35•13•3•Updated Nov 5, 2024Nov 5, 2024

    • AnvilDataModels

      Public
      R package to work with AnVIL data models
      R
      •
      Other
      •0•1•2•0•Updated Oct 30, 2024Oct 30, 2024

    • primed-pgs-queries

      Public
      Code to query the PGS catalog for PRIMED PMIDs
      Python
      •
      MIT License
      •0•0•2•0•Updated Oct 16, 2024Oct 16, 2024

    • fetch-dbgap-files

      Public
      Code to fetch dbGaP files using sra-toolkit
      Python
      •
      MIT License
      •1•0•0•1•Updated Sep 26, 2024Sep 26, 2024

    • gregor-file-checks

      Public
      GREGoR file checking workflows
      WDL
      •0•0•1•0•Updated Sep 10, 2024Sep 10, 2024

    • primed-inventory-workflows

      Public
      Workflows for generating the PRIMED inventory workspace
      R
      •
      MIT License
      •0•0•0•0•Updated Jul 26, 2024Jul 26, 2024

    • primed-imputation

      Public
      PRIMED imputation workflow
      WDL
      •0•0•0•0•Updated Jul 11, 2024Jul 11, 2024

    • primed-genesis-gwas

      Public
      Workflow for running GENESIS on PRIMED data
      WDL
      •0•0•0•0•Updated Jul 11, 2024Jul 11, 2024

    • primed_data_models

      Public
      A repository for version control of consortium data model(s)
      R
      •
      MIT License
      •2•2•1•0•Updated Jul 2, 2024Jul 2, 2024

    • SISG_2024

      Public
      HTML
      •2•0•0•0•Updated Jun 12, 2024Jun 12, 2024

    • womtool-action

      Public
      Run womtool as a github action
      MIT License
      •0•0•0•0•Updated May 28, 2024May 28, 2024

    • simulate_phenotypes

      Public
      Code for simulating phenotypes
      R
      •6•3•0•0•Updated May 21, 2024May 21, 2024

    • genesis_wdl

      Public
      WDL workflow for analysis based on the R GENESIS package
      R
      •
      MIT License
      •2•0•0•0•Updated Feb 7, 2024Feb 7, 2024

    • wdl_test

      Public
      WDL
      •0•0•0•0•Updated Nov 7, 2023Nov 7, 2023