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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 512 114

  3. scarches scarches Public

    Reference mapping for single-cell genomics

    Jupyter Notebook 410 72

  4. scib scib Public

    Benchmarking analysis of data integration tools

    Python 431 77

  5. ehrapy ehrapy Public

    Electronic Health Record Analysis with Python.

    Python 361 53

  6. moscot moscot Public

    Multi-omic single-cell optimal transport tools

    Python 216 16

Repositories

Showing 10 of 273 repositories
  • ehrdata Public

    A datastructure for EHR data

    theislab/ehrdata's past year of commit activity
    Python 15 Apache-2.0 7 6 3 Updated Sep 15, 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 Sep 15, 2026
  • DRVI Public

    Unsupervised Deep Disentangled Representation of Single-Cell Omics

    theislab/DRVI's past year of commit activity
    Python 82 BSD-3-Clause 6 5 3 Updated Sep 15, 2026
  • anndata2ri Public

    Convert between AnnData and SingleCellExperiment

    theislab/anndata2ri's past year of commit activity
    Python 153 GPL-3.0 19 11 0 Updated Sep 15, 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 Sep 15, 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 31 BSD-3-Clause 2 0 2 Updated Sep 14, 2026
  • spatialdata-db Public
    theislab/spatialdata-db's past year of commit activity
    Jupyter Notebook 12 BSD-3-Clause 1 26 3 Updated Sep 14, 2026
  • multigrate Public

    Multigrate: multiomic data integration for single-cell genomics

    theislab/multigrate's past year of commit activity
    Python 35 BSD-3-Clause 9 2 2 Updated Sep 14, 2026
  • moscot Public

    Multi-omic single-cell optimal transport tools

    theislab/moscot's past year of commit activity
    Python 216 BSD-3-Clause 16 32 5 Updated Sep 14, 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 12 MIT 1 0 2 Updated Sep 14, 2026
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