Skip to content
@theislab

Theis Lab

Theis Lab at Institute of Computational Biology, Helmholtz Munich

Pinned Loading

  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 514 118

  3. scarches scarches Public

    Reference mapping for single-cell genomics

    Jupyter Notebook 414 74

  4. scib scib Public

    Benchmarking analysis of data integration tools

    Python 436 79

  5. ehrapy ehrapy Public

    Electronic Health Record Analysis with Python.

    Python 369 55

  6. moscot moscot Public

    Multi-omic single-cell optimal transport tools

    Python 219 16

Repositories

Showing 10 of 278 repositories
  • ehrdata Public

    A datastructure for EHR data

    theislab/ehrdata's past year of commit activity
    Python 15 Apache-2.0 7 3 3 Updated Nov 5, 2026
  • Chem-PerturBridge_analysis Public
    theislab/Chem-PerturBridge_analysis's past year of commit activity
    Jupyter Notebook 2 1 0 0 Updated Nov 5, 2026
  • scPDAC Public
    theislab/scPDAC's past year of commit activity
    Python 4 MIT 1 0 1 Updated Nov 5, 2026
  • PDAC Public
    theislab/PDAC's past year of commit activity
    Jupyter Notebook 1 0 0 0 Updated Nov 5, 2026
  • chimera Public

    Cross-species scRNA-seq integration with learnable per-gene evolutionary gating

    theislab/chimera's past year of commit activity
    Jupyter Notebook 1 BSD-3-Clause 0 0 0 Updated Nov 4, 2026
  • single-cell-best-practices Public

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

    theislab/single-cell-best-practices's past year of commit activity
    Jupyter Notebook 1,297 279 2 3 Updated Nov 4, 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 Nov 4, 2026
  • spatialdata-db-client Public
    theislab/spatialdata-db-client's past year of commit activity
    Python 3 BSD-3-Clause 0 2 0 Updated Nov 4, 2026
  • ReconEval Public

    Benchmarking for gene expression from single cell latent representations

    theislab/ReconEval's past year of commit activity
    Jupyter Notebook 22 MIT 3 1 2 Updated Nov 3, 2026
  • donordata Public

    Single-cell experiments measure cells but are designed around donors: patients, samples, guides, compounds. DonorData keeps these levels together in one object and aligned under every operation.

    theislab/donordata's past year of commit activity
    Python 2 Apache-2.0 0 0 1 Updated Nov 3, 2026
View all repositories