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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 259

  2. scvelo scvelo Public

    RNA Velocity generalized through dynamical modeling

    Python 490 111

  3. scarches scarches Public

    Reference mapping for single-cell genomics

    Jupyter Notebook 400 70

  4. scib scib Public

    Benchmarking analysis of data integration tools

    Python 408 75

  5. ehrapy ehrapy Public

    Electronic Health Record Analysis with Python.

    Python 333 41

Repositories

Showing 10 of 253 repositories
  • anndata2ri Public

    Convert between AnnData and SingleCellExperiment

    theislab/anndata2ri’s past year of commit activity
    Python 144 GPL-3.0 19 13 0 Updated Mar 10, 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 10, 2026
  • spatialdata-db Public
    theislab/spatialdata-db’s past year of commit activity
    Jupyter Notebook 10 BSD-3-Clause 1 26 3 Updated Mar 10, 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 26 BSD-3-Clause 2 0 2 Updated Mar 9, 2026
  • mapqc Public

    MapQC - a metric for the evaluation of single-cell query-to-reference mappings

    theislab/mapqc’s past year of commit activity
    Python 11 MIT 1 0 2 Updated Mar 9, 2026
  • moscot Public

    Multi-omic single-cell optimal transport tools

    theislab/moscot’s past year of commit activity
    Python 193 BSD-3-Clause 16 30 5 Updated Mar 10, 2026
  • multigrate Public

    Multigrate: multiomic data integration for single-cell genomics

    theislab/multigrate’s past year of commit activity
    Python 31 BSD-3-Clause 9 6 2 Updated Mar 10, 2026
  • CellFlow Public

    Modeling complex perturbations with CellFlow

    theislab/CellFlow’s past year of commit activity
    Python 123 MIT 23 50 15 Updated Mar 10, 2026
  • ehrdata Public

    A datastructure for EHR data

    theislab/ehrdata’s past year of commit activity
    Python 9 Apache-2.0 5 9 1 Updated Mar 10, 2026
  • ehrapy Public

    Electronic Health Record Analysis with Python.

    theislab/ehrapy’s past year of commit activity
    Python 333 Apache-2.0 41 27 (1 issue needs help) 4 Updated Mar 10, 2026
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