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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 232

  2. scvelo scvelo Public

    RNA Velocity generalized through dynamical modeling

    Python 466 110

  3. cellrank cellrank Public

    CellRank: dynamics from multi-view single-cell data

    Python 395 50

  4. scarches scarches Public

    Reference mapping for single-cell genomics

    Jupyter Notebook 384 64

  5. scib scib Public

    Benchmarking analysis of data integration tools

    Python 382 71

  6. ehrapy ehrapy Public

    Electronic Health Record Analysis with Python.

    Python 307 36

Repositories

Showing 10 of 238 repositories
  • ehrapy Public

    Electronic Health Record Analysis with Python.

    theislab/ehrapy’s past year of commit activity
    Python 307 Apache-2.0 36 33 3 Updated Sep 24, 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 Sep 24, 2025
  • regvelo Public

    inferring regulatory cellular dynamics

    theislab/regvelo’s past year of commit activity
    Python 56 BSD-3-Clause 5 2 0 Updated Sep 24, 2025
  • rapids_singlecell-reproducibility Public
    theislab/rapids_singlecell-reproducibility’s past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Sep 23, 2025
  • DRVI_reproducibility Public

    Reproducibility repository of DRVI

    theislab/DRVI_reproducibility’s past year of commit activity
    Jupyter Notebook 3 1 0 0 Updated Sep 23, 2025
  • scarches Public

    Reference mapping for single-cell genomics

    theislab/scarches’s past year of commit activity
    Jupyter Notebook 384 BSD-3-Clause 64 55 9 Updated Sep 23, 2025
  • prophet Public
    theislab/prophet’s past year of commit activity
    Jupyter Notebook 35 MIT 2 3 0 Updated Sep 23, 2025
  • anndata2ri Public

    Convert between AnnData and SingleCellExperiment

    theislab/anndata2ri’s past year of commit activity
    Python 139 GPL-3.0 19 13 0 Updated Sep 22, 2025
  • scanpydoc Public

    Collection of Sphinx extensions similar to (but more flexible than) numpydoc

    theislab/scanpydoc’s past year of commit activity
    Python 12 GPL-3.0 6 2 0 Updated Sep 22, 2025
  • multigrate Public

    Multigrate: multiomic data integration for single-cell genomics

    theislab/multigrate’s past year of commit activity
    Python 27 BSD-3-Clause 8 4 3 Updated Sep 23, 2025
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