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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 247

  2. scvelo scvelo Public

    RNA Velocity generalized through dynamical modeling

    Python 482 112

  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 397 66

  5. scib scib Public

    Benchmarking analysis of data integration tools

    Python 400 73

  6. ehrapy ehrapy Public

    Electronic Health Record Analysis with Python.

    Python 327 39

Repositories

Showing 10 of 251 repositories
  • single-cell-best-practices Public

    https://www.sc-best-practices.org

    theislab/single-cell-best-practices’s past year of commit activity
    Jupyter Notebook 1,108 247 77 3 Updated Jan 14, 2026
  • hadge Public

    Comprehensive pipeline for donor demultiplexing in single cell

    theislab/hadge’s past year of commit activity
    Nextflow 24 MIT 7 14 1 Updated Jan 14, 2026
  • scCODA Public

    A Bayesian model for compositional single-cell data analysis

    theislab/scCODA’s past year of commit activity
    Jupyter Notebook 185 BSD-3-Clause 26 8 1 Updated Jan 13, 2026
  • DRVI Public

    Unsupervised Deep Disentangled Representation of Single-Cell Omics

    theislab/DRVI’s past year of commit activity
    Python 58 BSD-3-Clause 5 8 1 Updated Jan 13, 2026
  • ehrdata Public

    A datastructure for EHR data

    theislab/ehrdata’s past year of commit activity
    Python 8 Apache-2.0 5 13 0 Updated Jan 13, 2026
  • multigrate Public

    Multigrate: multiomic data integration for single-cell genomics

    theislab/multigrate’s past year of commit activity
    Python 30 BSD-3-Clause 9 5 2 Updated Jan 13, 2026
  • paperbee Public

    LLM-powered personalized daily lists of scientific papers

    theislab/paperbee’s past year of commit activity
    Python 81 MIT 12 7 (1 issue needs help) 5 Updated Jan 13, 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 Jan 13, 2026
  • regvelo Public

    inferring regulatory cellular dynamics

    theislab/regvelo’s past year of commit activity
    Python 62 BSD-3-Clause 6 1 0 Updated Jan 13, 2026
  • anndata2ri Public

    Convert between AnnData and SingleCellExperiment

    theislab/anndata2ri’s past year of commit activity
    Python 143 GPL-3.0 19 13 0 Updated Jan 12, 2026
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