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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 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 327 39

Repositories

Showing 10 of 251 repositories
  • 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 12, 2026
  • CellFlow2 Public

    Modeling complex perturbations with CellFlow

    theislab/CellFlow2’s past year of commit activity
    Python 7 2 0 0 Updated Jan 12, 2026
  • zellkonverter Public

    Conversion between scRNA-seq objects

    theislab/zellkonverter’s past year of commit activity
    R 197 31 14 2 Updated Jan 12, 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 12, 2026
  • idtrack Public

    Cross-Temporal and Cross-Database Biological Identifier Mapping

    theislab/idtrack’s past year of commit activity
    Jupyter Notebook 2 BSD-3-Clause 1 1 0 Updated Jan 12, 2026
  • huCIRA Public
    theislab/huCIRA’s past year of commit activity
    Python 25 MIT 3 0 0 Updated Jan 11, 2026
  • hadge Public

    Comprehensive pipeline for donor demultiplexing in single cell

    theislab/hadge’s past year of commit activity
    Nextflow 24 MIT 7 13 1 Updated Jan 11, 2026
  • cellflow_reproducibility Public

    Reproducibility repository for CellFlow

    theislab/cellflow_reproducibility’s past year of commit activity
    Jupyter Notebook 6 3 0 1 Updated Jan 9, 2026
  • cellink Public

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

    theislab/cellink’s past year of commit activity
    Python 10 Apache-2.0 2 11 5 Updated Jan 8, 2026
  • interactive_plotting Public
    theislab/interactive_plotting’s past year of commit activity
    Jupyter Notebook 22 6 11 1 Updated Jan 6, 2026
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