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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
  • ehrdata Public

    A datastructure for EHR data

    theislab/ehrdata's past year of commit activity
    Python 15 Apache-2.0 7 3 1 Updated Nov 2, 2026
  • ehrapy Public

    Electronic Health Record Analysis with Python.

    theislab/ehrapy's past year of commit activity
    Python 369 Apache-2.0 54 4 2 Updated Nov 2, 2026
  • sckitflow Public
    theislab/sckitflow's past year of commit activity
    Python 8 BSD-3-Clause 1 21 (1 issue needs help) 2 Updated Nov 2, 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 2, 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 2, 2026
  • DRVI Public

    Unsupervised Deep Disentangled Representation of Single-Cell Omics

    theislab/DRVI's past year of commit activity
    Python 83 BSD-3-Clause 6 5 2 Updated Nov 2, 2026
  • InterScale_reproducibility Public

    InterScale's reproducibility repository.

    theislab/InterScale_reproducibility's past year of commit activity
    Jupyter Notebook 0 BSD-3-Clause 0 0 0 Updated Nov 2, 2026
  • sprotmetrics Public

    Quality metrics for imaging-based spatial proteomics: segmentation, signal-to-background, normalization, marker distribution and technical-covariate diagnostics.

    theislab/sprotmetrics's past year of commit activity
    Python 2 MIT 0 0 1 Updated Nov 2, 2026
  • 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
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