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@theislab

Theis Lab

Institute of Computational Biology

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  1. single-cell-best-practices single-cell-best-practices Public

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

    Jupyter Notebook 936 220

  2. scvelo scvelo Public

    RNA Velocity generalized through dynamical modeling

    Python 450 107

  3. cellrank cellrank Public

    CellRank: dynamics from multi-view single-cell data

    Python 389 50

  4. scarches scarches Public

    Reference mapping for single-cell genomics

    Jupyter Notebook 374 60

  5. scib scib Public

    Benchmarking analysis of data integration tools

    Python 363 69

  6. single-cell-transformer-papers single-cell-transformer-papers Public

    HTML 321 41

Repositories

Showing 10 of 233 repositories
  • CellFlow Public

    Modeling complex perturbations with CellFlow

    theislab/CellFlow’s past year of commit activity
    Python 61 7 45 11 Updated Jul 2, 2025
  • hadge Public

    Comprehensive pipeline for donor demultiplexing in single cell

    theislab/hadge’s past year of commit activity
    Nextflow 24 MIT 8 11 2 Updated Jul 2, 2025
  • gh-dashboard Public

    A dashboard of everything in the theislab GitHub repository

    theislab/gh-dashboard’s past year of commit activity
    HTML 5 0 0 0 Updated Jul 2, 2025
  • ehrdata Public

    A datastructure for EHR data

    theislab/ehrdata’s past year of commit activity
    Python 5 Apache-2.0 3 15 0 Updated Jul 2, 2025
  • ehrapy Public

    Electronic Health Record Analysis with Python.

    theislab/ehrapy’s past year of commit activity
    Python 294 Apache-2.0 29 42 (1 issue needs help) 3 Updated Jul 2, 2025
  • regvelo Public

    inferring regulatory cellular dynamics

    theislab/regvelo’s past year of commit activity
    Python 48 BSD-3-Clause 3 3 0 Updated Jul 1, 2025
  • 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 6 2 0 Updated Jul 1, 2025
  • tissue Public
    theislab/tissue’s past year of commit activity
    Python 2 BSD-3-Clause 0 0 0 Updated Jul 1, 2025
  • DRVI Public

    Unsupervised Deep Disentangled Representation of Single-Cell Omics

    theislab/DRVI’s past year of commit activity
    Python 44 BSD-3-Clause 3 6 2 Updated Jul 1, 2025
  • DRVI_reproducibility Public

    Reproducibility repository of DRVI

    theislab/DRVI_reproducibility’s past year of commit activity
    Jupyter Notebook 3 1 0 0 Updated Jul 1, 2025
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