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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 279

  2. scvelo scvelo Public

    RNA Velocity generalized through dynamical modeling

    Python 514 118

  3. scarches scarches Public

    Reference mapping for single-cell genomics

    Jupyter Notebook 414 74

  4. scib scib Public

    Benchmarking analysis of data integration tools

    Python 435 79

  5. ehrapy ehrapy Public

    Electronic Health Record Analysis with Python.

    Python 369 54

  6. moscot moscot Public

    Multi-omic single-cell optimal transport tools

    Python 220 16

Repositories

Showing 10 of 278 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 Nov 1, 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 Nov 1, 2026
  • cellucid-datasets Public

    Sample dataset exports for the Cellucid web app, hosted separately to keep the app lightweight and allow independent dataset updates.

    theislab/cellucid-datasets's past year of commit activity
    JavaScript 0 0 0 0 Updated Nov 1, 2026
  • cellucid Public

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

    theislab/cellucid's past year of commit activity
    JavaScript 8 BSD-3-Clause 0 0 0 Updated Nov 1, 2026
  • chem-perturbridge_lpm Public
    theislab/chem-perturbridge_lpm's past year of commit activity
    Python 1 MIT 0 0 0 Updated Nov 1, 2026
  • op3_signatures Public
    theislab/op3_signatures's past year of commit activity
    Jupyter Notebook 1 0 0 0 Updated Nov 1, 2026
  • spatialdata-db-client Public
    theislab/spatialdata-db-client's past year of commit activity
    Python 3 BSD-3-Clause 0 2 0 Updated Nov 1, 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 Nov 1, 2026
  • geome Public
    theislab/geome's past year of commit activity
    Python 17 MIT 4 7 1 Updated Nov 1, 2026
  • cellink Public

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

    theislab/cellink's past year of commit activity
    Python 25 Apache-2.0 7 5 6 Updated Nov 1, 2026
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