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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 513 117

  3. scarches scarches Public

    Reference mapping for single-cell genomics

    Jupyter Notebook 413 73

  4. scib scib Public

    Benchmarking analysis of data integration tools

    Python 434 79

  5. ehrapy ehrapy Public

    Electronic Health Record Analysis with Python.

    Python 368 53

  6. moscot moscot Public

    Multi-omic single-cell optimal transport tools

    Python 217 16

Repositories

Showing 10 of 276 repositories
  • cellucid-python Public

    The complete Python toolkit for Cellucid. Serve, export, document, explore.

    theislab/cellucid-python's past year of commit activity
    Python 3 BSD-3-Clause 0 0 0 Updated Oct 18, 2026
  • cellucid Public

    See every cell. Query any gene. Fly through millions. Zero friction.

    theislab/cellucid's past year of commit activity
    JavaScript 6 BSD-3-Clause 0 0 0 Updated Oct 18, 2026
  • spatialdata-db-client Public
    theislab/spatialdata-db-client's past year of commit activity
    Python 0 BSD-3-Clause 0 0 0 Updated Oct 18, 2026
  • cellink Public

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

    theislab/cellink's past year of commit activity
    Python 23 Apache-2.0 6 5 4 Updated Oct 17, 2026
  • cellucid-r Public

    From R to exploration in Cellucid. One function, minimal footprint.

    theislab/cellucid-r's past year of commit activity
    R 0 0 0 0 Updated Oct 17, 2026
  • sckitflow Public
    theislab/sckitflow's past year of commit activity
    Python 7 BSD-3-Clause 1 26 (2 issues need help) 1 Updated Oct 17, 2026
  • cellucid-demo-custom-datasets Public

    User dataset exports demo for the Cellucid web app.

    theislab/cellucid-demo-custom-datasets's past year of commit activity
    Python 0 BSD-3-Clause 0 0 0 Updated Oct 17, 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 Oct 17, 2026
  • donordata Public

    Single-cell experiments measure cells but are designed around donors: patients, samples, guides, compounds. DonorData keeps these levels together in one object and aligned under every operation.

    theislab/donordata's past year of commit activity
    Python 2 Apache-2.0 0 0 0 Updated Oct 17, 2026
  • ehrapy Public

    Electronic Health Record Analysis with Python.

    theislab/ehrapy's past year of commit activity
    Python 368 Apache-2.0 53 4 3 Updated Oct 16, 2026
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