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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 482 112

  3. cellrank cellrank Public

    CellRank: dynamics from multi-view single-cell data

    Python 411 50

  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 400 73

  6. ehrapy ehrapy Public

    Electronic Health Record Analysis with Python.

    Python 325 39

Repositories

Showing 10 of 251 repositories
  • ehrdata Public

    A datastructure for EHR data

    theislab/ehrdata’s past year of commit activity
    Python 8 Apache-2.0 4 15 0 Updated Jan 3, 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 3, 2026
  • hadge Public

    Comprehensive pipeline for donor demultiplexing in single cell

    theislab/hadge’s past year of commit activity
    Nextflow 24 MIT 7 21 1 Updated Jan 2, 2026
  • cellucid-r Public

    From R to exploration in Cellucid. One function, minimal footprint.

    theislab/cellucid-r’s past year of commit activity
    R 0 0 0 0 Updated Jan 1, 2026
  • cellucid Public

    See every cell. Query any gene. Fly through millions. Zero friction.

    theislab/cellucid’s past year of commit activity
    JavaScript 2 BSD-3-Clause 0 0 0 Updated Jan 1, 2026
  • cellucid-python Public

    The complete Python toolkit for Cellucid. Serve, export, document, explore.

    theislab/cellucid-python’s past year of commit activity
    Python 1 BSD-3-Clause 0 0 0 Updated Jan 1, 2026
  • cellink Public

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

    theislab/cellink’s past year of commit activity
    Python 7 Apache-2.0 1 11 4 Updated Dec 29, 2025
  • DRVI Public

    Unsupervised Deep Disentangled Representation of Single-Cell Omics

    theislab/DRVI’s past year of commit activity
    Python 57 BSD-3-Clause 5 8 1 Updated Dec 29, 2025
  • cellucid-annotation Public template

    From clusters to consensus. Collaborative cell type annotation for Cellucid.

    theislab/cellucid-annotation’s past year of commit activity
    Python 0 0 0 0 Updated Dec 28, 2025
  • zellkonverter Public

    Conversion between scRNA-seq objects

    theislab/zellkonverter’s past year of commit activity
    R 195 31 14 2 Updated Dec 28, 2025
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