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@theislab

Theis Lab

Institute of Computational Biology

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  1. single-cell-best-practices single-cell-best-practices Public

    https://www.sc-best-practices.org

    Jupyter Notebook 1k 231

  2. scvelo scvelo Public

    RNA Velocity generalized through dynamical modeling

    Python 461 109

  3. cellrank cellrank Public

    CellRank: dynamics from multi-view single-cell data

    Python 393 50

  4. scarches scarches Public

    Reference mapping for single-cell genomics

    Jupyter Notebook 382 63

  5. scib scib Public

    Benchmarking analysis of data integration tools

    Python 374 69

  6. ehrapy ehrapy Public

    Electronic Health Record Analysis with Python.

    Python 303 35

Repositories

Showing 10 of 235 repositories
  • regvelo_reproducibility Public
    theislab/regvelo_reproducibility’s past year of commit activity
    Jupyter Notebook 8 BSD-3-Clause 0 0 0 Updated Aug 30, 2025
  • gh-dashboard Public

    A dashboard of everything in the theislab GitHub repository

    theislab/gh-dashboard’s past year of commit activity
    HTML 6 0 1 0 Updated Aug 30, 2025
  • prophet Public
    theislab/prophet’s past year of commit activity
    Jupyter Notebook 36 MIT 2 3 0 Updated Aug 29, 2025
  • CellFlow Public

    Modeling complex perturbations with CellFlow

    theislab/CellFlow’s past year of commit activity
    Python 83 11 48 14 Updated Aug 29, 2025
  • FlatVI Public
    theislab/FlatVI’s past year of commit activity
    Jupyter Notebook 5 1 1 0 Updated Aug 29, 2025
  • CFGen Public
    theislab/CFGen’s past year of commit activity
    Jupyter Notebook 22 MIT 5 2 0 Updated Aug 29, 2025
  • hadge Public

    Comprehensive pipeline for donor demultiplexing in single cell

    theislab/hadge’s past year of commit activity
    Nextflow 24 MIT 8 14 2 Updated Aug 29, 2025
  • scib Public

    Benchmarking analysis of data integration tools

    theislab/scib’s past year of commit activity
    Python 374 MIT 69 37 8 Updated Aug 29, 2025
  • regvelo Public

    inferring regulatory cellular dynamics

    theislab/regvelo’s past year of commit activity
    Python 54 BSD-3-Clause 6 2 0 Updated Aug 28, 2025
  • spatial_scooby Public Forked from gagneurlab/scooby

    spatial_scooby: Modeling spatial transcriptomics from DNA sequence at single-cell resolution.

    theislab/spatial_scooby’s past year of commit activity
    Python 0 MIT 4 0 0 Updated Aug 27, 2025
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