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@refgenie Refgenie

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    20 repositories

    • refgenie-docs

      Public
      Documentation for refgenie components
      Python
      •0•0•1•0•Updated Apr 12, 2026Apr 12, 2026

    • recipes

      Public
      recipes & asset classes definitions
      GNU General Public License v3.0
      •1•0•1•1•Updated Apr 12, 2026Apr 12, 2026

    • refget

      Public
      Python tools for identification and distribution of reference sequences and sequence collections
      Python
      •
      BSD 2-Clause "Simplified" License
      •1•10•4•13•Updated Apr 11, 2026Apr 11, 2026

    • refgenieserver

      Public
      Serves a web interface and RESTful API for reference genome assets.
      docker-containerapi-servergenome-assembly
      docker-containerapi-servergenome-assemblyreference-genome
      Python
      •
      BSD 2-Clause "Simplified" License
      •3•12•2•0•Updated Apr 11, 2026Apr 11, 2026

    • refgenconf

      Public
      A Python object for standardized reference genome assets.
      reference-genomepythonapirefgenie
      reference-genomepythonapirefgenie
      Python
      •
      BSD 2-Clause "Simplified" License
      •7•2•1•0•Updated Apr 1, 2026Apr 1, 2026

    • refgenie

      Public
      Reference genome resource manager
      api-clientreference-genome
      api-clientreference-genome
      Python
      •
      BSD 2-Clause "Simplified" License
      •9•74•26•0•Updated Mar 6, 2026Mar 6, 2026

    • seqcolapi

      Public archive
      Python
      •
      BSD 2-Clause "Simplified" License
      •2•0•0•0•Updated Feb 19, 2026Feb 19, 2026

    • refgenie-ui

      Public
      UI demo/placeholder for new refgenie interface
      TypeScript
      •0•0•0•0•Updated Oct 14, 2025Oct 14, 2025

    • refgenomes.databio.org

      Public
      Primary refgenieserver instance
      Python
      •0•1•4•0•Updated Aug 12, 2025Aug 12, 2025

    • seqcol

      Public archive
      Implementation of sequence collections
      Jupyter Notebook
      •
      BSD 2-Clause "Simplified" License
      •0•1•0•0•Updated Feb 14, 2024Feb 14, 2024

    • refgenie_looper_demo

      Public
      Demo of how to use the refgenie plugin with looper
      Python
      •0•0•0•0•Updated Jul 10, 2022Jul 10, 2022

    • aws_igenomes

      Public
      configuration for an iGenomes refgenieserver
      serverreference-datarefgenie
      serverreference-datarefgenie
      Python
      •1•1•0•1•Updated May 3, 2022May 3, 2022

    • rg.databio.org

      Public
      refgenieserver instance for testing
      Python
      •0•0•0•0•Updated Aug 13, 2021Aug 13, 2021

    • refgenie_myplugin

      Public
      A demo refgenie plugin
      Python
      •
      BSD 2-Clause "Simplified" License
      •0•0•0•0•Updated Jul 9, 2021Jul 9, 2021

    • refgenie_nfcore

      Public
      Nextflow plugin for refgenie compatibility
      Python
      •
      BSD 2-Clause "Simplified" License
      •0•8•1•0•Updated Jul 9, 2021Jul 9, 2021

    • btref.databio.org

      Public
      Repository for building bowtie/bowtie2 indexes for refgenie
      Python
      •0•0•1•0•Updated Apr 27, 2021Apr 27, 2021

    • plantref

      Public
      Refgenieserver content repository for plant genomes server
      Python
      •1•0•2•0•Updated Apr 1, 2021Apr 1, 2021

    • deploy_guide

      Public
      Information on deployed refgenieserver instances.
      1•0•0•0•Updated Nov 20, 2020Nov 20, 2020

    • server_deploy_demo

      Public
      Demo for deploying refgenieserver instance to AWS
      Dockerfile
      •0•0•0•0•Updated Jun 23, 2020Jun 23, 2020

    • software_deploy_demo

      Public
      A demo for automatic deploy of staging for software testing
      Python
      •
      BSD 2-Clause "Simplified" License
      •0•0•0•0•Updated Jun 18, 2020Jun 18, 2020
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