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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 281

  2. scvelo scvelo Public

    RNA Velocity generalized through dynamical modeling

    Python 515 119

  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 436 79

  5. ehrapy ehrapy Public

    Electronic Health Record Analysis with Python.

    Python 374 55

  6. moscot moscot Public

    Multi-omic single-cell optimal transport tools

    Python 220 16

Repositories

Showing 10 of 280 repositories
  • diffsvg Public
    theislab/diffsvg's past year of commit activity
    Python 0 BSD-3-Clause 0 0 3 Updated Nov 14, 2026
  • Chem-PerturBridge_analysis Public
    theislab/Chem-PerturBridge_analysis's past year of commit activity
    Jupyter Notebook 2 1 0 0 Updated Nov 14, 2026
  • chimera Public

    Cross-species scRNA-seq integration with learnable per-gene evolutionary gating

    theislab/chimera's past year of commit activity
    Jupyter Notebook 2 0 0 0 Updated Nov 14, 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 8 6 4 Updated Nov 14, 2026
  • spatialdata-db-client Public
    theislab/spatialdata-db-client's past year of commit activity
    Python 3 BSD-3-Clause 0 2 2 Updated Nov 14, 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 14, 2026
  • interscale Public

    InterScale: multi-scale cellular interaction analysis model for spatial transcriptomics

    theislab/interscale's past year of commit activity
    Python 14 BSD-3-Clause 2 7 4 Updated Nov 13, 2026
  • ReconEval Public

    Benchmarking for gene expression from single cell latent representations

    theislab/ReconEval's past year of commit activity
    Jupyter Notebook 22 MIT 3 1 1 Updated Nov 13, 2026
  • embpy Public
    theislab/embpy's past year of commit activity
    Python 23 MIT 2 9 2 Updated Nov 13, 2026
  • cellucid-datasets Public

    Cellucid demo datasets. Real single-cell data, one click from exploring.

    theislab/cellucid-datasets's past year of commit activity
    JavaScript 0 0 0 0 Updated Nov 13, 2026
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