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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 1.1k 246

  2. scvelo scvelo Public

    RNA Velocity generalized through dynamical modeling

    Python 480 113

  3. cellrank cellrank Public

    CellRank: dynamics from multi-view single-cell data

    Python 411 51

  4. scarches scarches Public

    Reference mapping for single-cell genomics

    Jupyter Notebook 396 66

  5. scib scib Public

    Benchmarking analysis of data integration tools

    Python 396 73

  6. ehrapy ehrapy Public

    Electronic Health Record Analysis with Python.

    Python 323 38

Repositories

Showing 10 of 249 repositories
  • huCIRA Public
    theislab/huCIRA’s past year of commit activity
    Python 16 MIT 3 1 0 Updated Dec 16, 2025
  • perturbation-metrics Public
    theislab/perturbation-metrics’s past year of commit activity
    Jupyter Notebook 6 BSD-3-Clause 0 0 1 Updated Dec 16, 2025
  • multimil Public

    Multimodal weakly supervised learning to identify disease-specific changes in single-cell atlases

    theislab/multimil’s past year of commit activity
    Python 35 BSD-3-Clause 7 3 1 Updated Dec 16, 2025
  • ehrapy Public

    Electronic Health Record Analysis with Python.

    theislab/ehrapy’s past year of commit activity
    Python 323 Apache-2.0 38 33 (1 issue needs help) 2 Updated Dec 16, 2025
  • 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 Dec 16, 2025
  • HumanCytokineDict Public

    Human Cytokine Dictionary

    theislab/HumanCytokineDict’s past year of commit activity
    Jupyter Notebook 0 2 0 1 Updated Dec 16, 2025
  • anndata2ri Public

    Convert between AnnData and SingleCellExperiment

    theislab/anndata2ri’s past year of commit activity
    Python 143 GPL-3.0 19 13 0 Updated Dec 16, 2025
  • scanpydoc Public

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

    theislab/scanpydoc’s past year of commit activity
    Python 11 GPL-3.0 6 3 0 Updated Dec 16, 2025
  • cellucid Public

    Interactive 3D UMAP viewer that scales to massive datasets.

    theislab/cellucid’s past year of commit activity
    JavaScript 0 0 0 0 Updated Dec 16, 2025
  • troutpy Public

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

    theislab/troutpy’s past year of commit activity
    Jupyter Notebook 23 BSD-3-Clause 2 0 2 Updated Dec 15, 2025
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