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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 1.2k 261

  2. scvelo scvelo Public

    RNA Velocity generalized through dynamical modeling

    Python 495 111

  3. scarches scarches Public

    Reference mapping for single-cell genomics

    Jupyter Notebook 401 70

  4. scib scib Public

    Benchmarking analysis of data integration tools

    Python 409 75

  5. ehrapy ehrapy Public

    Electronic Health Record Analysis with Python.

    Python 336 43

Repositories

Showing 10 of 254 repositories
  • cellink Public

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

    theislab/cellink’s past year of commit activity
    Python 14 Apache-2.0 2 5 3 Updated Apr 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 Apr 1, 2026
  • scConcept Public

    Contrastive pre-training for technology-agnostic single-cell representations beyond reconstruction

    theislab/scConcept’s past year of commit activity
    Python 23 MIT 3 0 0 Updated Apr 1, 2026
  • ehrapy Public

    Electronic Health Record Analysis with Python.

    theislab/ehrapy’s past year of commit activity
    Python 336 Apache-2.0 43 25 (1 issue needs help) 5 Updated Apr 1, 2026
  • embpy Public
    theislab/embpy’s past year of commit activity
    Python 3 MIT 0 5 1 Updated Apr 1, 2026
  • ehrapy-tutorials Public

    Tutorials for ehrapy

    theislab/ehrapy-tutorials’s past year of commit activity
    Jupyter Notebook 9 Apache-2.0 2 0 1 Updated Mar 31, 2026
  • DRVI Public

    Unsupervised Deep Disentangled Representation of Single-Cell Omics

    theislab/DRVI’s past year of commit activity
    Python 61 BSD-3-Clause 5 4 2 Updated Mar 31, 2026
  • scanpydoc Public

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

    theislab/scanpydoc’s past year of commit activity
    Python 12 GPL-3.0 5 4 0 Updated Mar 31, 2026
  • spatialdata-db Public
    theislab/spatialdata-db’s past year of commit activity
    Jupyter Notebook 10 BSD-3-Clause 1 26 3 Updated Mar 30, 2026
  • troutpy Public

    Package for the analysis of Transcripts outside segmented cells in ST data

    theislab/troutpy’s past year of commit activity
    Jupyter Notebook 28 BSD-3-Clause 2 0 2 Updated Mar 30, 2026
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