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    11 repositories

    • GenomeKit

      Public
      A Python library for fast and easy access to genomic resources such as sequence, data tracks, and annotations
      Python
      •
      Apache License 2.0
      •5•47•13•4•Updated Aug 19, 2025Aug 19, 2025

    • cromwell

      Public
      Scientific workflow engine designed for simplicity & scalability. Trivially transition between one off use cases to massive scale production environments
      Scala
      •
      BSD 3-Clause "New" or "Revised" License
      •373•0•0•0•Updated Jun 5, 2025Jun 5, 2025

    • REPRESS

      Public
      Python
      •
      Other
      •1•9•1•0•Updated May 22, 2025May 22, 2025

    • cromwell-monitor

      Public
      Generate stats for Cromwell task calls including resource utilization & estimated costs
      Python
      •9•0•6•0•Updated Nov 8, 2024Nov 8, 2024

    • wdl-runner

      Public
      Easily run WDL workflows on GCP
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •12•0•0•0•Updated Sep 30, 2024Sep 30, 2024

    • staged-recipes

      Public
      A fork of conda-forge to facilitate publishing GenomeKit
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •5.4k•0•0•0•Updated Mar 16, 2024Mar 16, 2024

    • UTR_variants_DL_manuscript

      Public
      Code for the UTR P/LP variants manuscript
      Jupyter Notebook
      •
      Apache License 2.0
      •0•3•0•0•Updated Jul 19, 2023Jul 19, 2023

    • prospr

      Public
      ProSPr: Protein Structure Prediction
      Jupyter Notebook
      •
      GNU Lesser General Public License v3.0
      •83•0•0•0•Updated Sep 19, 2022Sep 19, 2022

    • REMBRANDTS

      Public
      REMoving Bias from Rna-seq ANalysis of Differential Transcript Stability
      R
      •11•0•0•0•Updated Sep 19, 2022Sep 19, 2022

    • CellProfiler-core

      Public
      Core classes and components used by CellProfiler
      Python
      •
      Other
      •24•0•0•0•Updated Sep 19, 2022Sep 19, 2022

    • lim_2021_data

      Public
      Data-munging code for Lim et al. (2021) (https://dx.doi.org/10.1038/s41467-021-24445-6) ("Multiplexed functional genomic analysis of 5’ untranslated region mutations across the spectrum of prostate cancer")
      Python
      •
      MIT License
      •0•1•0•0•Updated Sep 16, 2022Sep 16, 2022