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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 1.1k 246

  2. scvelo scvelo Public

    RNA Velocity generalized through dynamical modeling

    Python 481 112

  3. cellrank cellrank Public

    CellRank: dynamics from multi-view single-cell data

    Python 411 50

  4. scarches scarches Public

    Reference mapping for single-cell genomics

    Jupyter Notebook 396 66

  5. scib scib Public

    Benchmarking analysis of data integration tools

    Python 398 73

  6. ehrapy ehrapy Public

    Electronic Health Record Analysis with Python.

    Python 323 39

Repositories

Showing 10 of 250 repositories
  • cellucid-annotation Public

    From clusters to consensus. Collaborative cell type annotation for Cellucid.

    theislab/cellucid-annotation’s past year of commit activity
    Python 0 1 0 0 Updated Dec 25, 2025
  • cellucid Public

    Interactive 3D UMAP viewer that scales to massive datasets.

    theislab/cellucid’s past year of commit activity
    JavaScript 2 0 0 0 Updated Dec 25, 2025
  • 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 Dec 25, 2025
  • cellucid-python Public

    Tools to export data into the Cellucid web viewer’s manifest and binaries.

    theislab/cellucid-python’s past year of commit activity
    Python 1 BSD-3-Clause 0 0 0 Updated Dec 23, 2025
  • scvelo Public

    RNA Velocity generalized through dynamical modeling

    theislab/scvelo’s past year of commit activity
    Python 481 BSD-3-Clause 112 71 5 Updated Dec 23, 2025
  • ehrapy Public

    Electronic Health Record Analysis with Python.

    theislab/ehrapy’s past year of commit activity
    Python 323 Apache-2.0 39 31 (1 issue needs help) 1 Updated Dec 22, 2025
  • anndata2ri Public

    Convert between AnnData and SingleCellExperiment

    theislab/anndata2ri’s past year of commit activity
    Python 143 GPL-3.0 19 13 0 Updated Dec 22, 2025
  • scanpydoc Public

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

    theislab/scanpydoc’s past year of commit activity
    Python 11 GPL-3.0 5 3 0 Updated Dec 22, 2025
  • multigrate Public

    Multigrate: multiomic data integration for single-cell genomics

    theislab/multigrate’s past year of commit activity
    Python 30 BSD-3-Clause 9 5 3 Updated Dec 22, 2025
  • moscot Public

    Multi-omic single-cell optimal transport tools

    theislab/moscot’s past year of commit activity
    Python 182 BSD-3-Clause 13 30 5 Updated Dec 22, 2025
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