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@theislab

Theis Lab

Theis Lab at Institute of Computational Biology, Helmholtz Munich

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

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

    Jupyter Notebook 1.3k 278

  2. scvelo scvelo Public

    RNA Velocity generalized through dynamical modeling

    Python 512 114

  3. scarches scarches Public

    Reference mapping for single-cell genomics

    Jupyter Notebook 411 72

  4. scib scib Public

    Benchmarking analysis of data integration tools

    Python 432 77

  5. ehrapy ehrapy Public

    Electronic Health Record Analysis with Python.

    Python 362 53

  6. moscot moscot Public

    Multi-omic single-cell optimal transport tools

    Python 216 16

Repositories

Showing 10 of 273 repositories
  • cellink Public

    Scalable framework for integrating single-cell omics with genetic data using AnnData.

    theislab/cellink's past year of commit activity
    Python 21 Apache-2.0 6 5 0 Updated Sep 23, 2026
  • Chem-PerturBridge_analysis Public
    theislab/Chem-PerturBridge_analysis's past year of commit activity
    Jupyter Notebook 0 1 0 1 Updated Sep 23, 2026
  • ehrapy Public

    Electronic Health Record Analysis with Python.

    theislab/ehrapy's past year of commit activity
    Python 362 Apache-2.0 53 16 6 Updated Sep 23, 2026
  • gh-dashboard Public

    A dashboard of everything in the theislab GitHub repository

    theislab/gh-dashboard's past year of commit activity
    HTML 8 0 1 0 Updated Sep 23, 2026
  • ehrdata Public

    A datastructure for EHR data

    theislab/ehrdata's past year of commit activity
    Python 15 Apache-2.0 7 7 4 Updated Sep 23, 2026
  • scfit Public
    theislab/scfit's past year of commit activity
    Python 2 MIT 0 1 2 Updated Sep 23, 2026
  • anndata2ri Public

    Convert between AnnData and SingleCellExperiment

    theislab/anndata2ri's past year of commit activity
    Python 153 GPL-3.0 19 11 0 Updated Sep 22, 2026
  • 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 5 4 0 Updated Sep 22, 2026
  • troutpy Public

    Package for the analysis of Transcripts outside segmented cells in ST data

    theislab/troutpy's past year of commit activity
    Jupyter Notebook 31 BSD-3-Clause 2 0 2 Updated Sep 21, 2026
  • multigrate Public

    Multigrate: multiomic data integration for single-cell genomics

    theislab/multigrate's past year of commit activity
    Python 35 BSD-3-Clause 9 2 2 Updated Sep 21, 2026
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