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    20 repositories

    • db_tools

      Public
      Python
      •
      MIT License
      •3•1•1•6•Updated Dec 8, 2022Dec 8, 2022

    • veoibd-synapse-data-manager

      Public
      An interface for uploading and annotating data to Synapse for members of the VEOIBD consortium.
      Python
      •
      MIT License
      •0•0•2•1•Updated Nov 29, 2018Nov 29, 2018

    • cookiecutter-data-science

      Public
      A logical, reasonably standardized, but flexible project structure for doing and sharing data science work.
      Python
      •
      MIT License
      •2.6k•0•0•0•Updated Jun 14, 2018Jun 14, 2018

    • biopyramid

      Public
      Framework for developing an online genomics application
      Python
      •
      MIT License
      •2•0•0•0•Updated Feb 12, 2018Feb 12, 2018

    • coordinator_data_tasks

      Public
      Python
      •
      MIT License
      •1•0•0•1•Updated Oct 26, 2017Oct 26, 2017

    • biorep-etl

      Public
      Python
      •
      MIT License
      •0•0•5•0•Updated Sep 29, 2017Sep 29, 2017

    • gemini

      Public
      a lightweight db framework for exploring genetic variation.
      Python
      •
      MIT License
      •120•0•0•0•Updated Sep 12, 2017Sep 12, 2017

    • vcf2db

      Public
      create a gemini-compatible database from a VCF
      Python
      •13•0•0•0•Updated Sep 6, 2017Sep 6, 2017

    • GSEApy

      Public
      Gene Set Enrichment Analysis in Python
      Python
      •
      MIT License
      •144•0•0•0•Updated Sep 2, 2017Sep 2, 2017

    • pytest-ngsfixtures

      Public
      pytest fixtures for next generation sequencing applications
      Python
      •
      Other
      •2•0•0•0•Updated Aug 22, 2017Aug 22, 2017

    • holographer

      Public
      0•0•0•0•Updated Aug 17, 2017Aug 17, 2017

    • surface_to_type

      Public
      Python
      •
      MIT License
      •0•0•0•0•Updated Aug 8, 2017Aug 8, 2017

    • risk_cohort_rnaseq

      Public
      Python
      •
      MIT License
      •0•0•0•0•Updated Jul 5, 2017Jul 5, 2017

    • intervention-outcomes

      Public
      Python
      •
      MIT License
      •0•0•0•0•Updated Dec 21, 2016Dec 21, 2016

    • PyBoolNet

      Public
      PyBoolNet is a Python package for the generation, modification and analysis of Boolean networks.
      Python
      •25•0•0•0•Updated Nov 1, 2016Nov 1, 2016

    • prep-data-for-ibd-portal

      Public
      This pipeline prepares VCFs and other data for importation to the Schadt group's variant analysis protal.
      Python
      •
      MIT License
      •2•0•3•0•Updated Oct 26, 2016Oct 26, 2016

    • synapsePythonClient

      Public
      Programmatic interface to Synapse services for Python
      Python
      •
      Apache License 2.0
      •77•0•0•0•Updated Oct 19, 2016Oct 19, 2016

    • veoibd_misc

      Public
      Python
      •
      Other
      •0•0•0•0•Updated Sep 14, 2016Sep 14, 2016

    • Ileal_Tx_CD_Haberman_2014

      Public
      Shell
      •
      MIT License
      •0•0•0•0•Updated Aug 6, 2016Aug 6, 2016

    • snakemake-pipelines

      Public
      snakemake-implemented pipelines
      HTML
      •
      MIT License
      •1•0•0•0•Updated Feb 19, 2016Feb 19, 2016
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