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@theislab

Theis Lab

Institute of Computational Biology

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  1. single-cell-best-practices Public

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

    Jupyter Notebook 945 222

  2. scvelo Public

    RNA Velocity generalized through dynamical modeling

    Python 451 108

  3. cellrank Public

    CellRank: dynamics from multi-view single-cell data

    Python 390 50

  4. scarches Public

    Reference mapping for single-cell genomics

    Jupyter Notebook 374 61

  5. scib Public

    Benchmarking analysis of data integration tools

    Python 363 69

  6. single-cell-transformer-papers Public

    HTML 321 41

Repositories

Showing 10 of 233 repositories
  • ehrdata Public

    A datastructure for EHR data

    Python 7 Apache-2.0 3 16 0 Updated Jul 9, 2025
  • hadge Public

    Comprehensive pipeline for donor demultiplexing in single cell

    Nextflow 24 MIT 8 11 1 Updated Jul 9, 2025
  • DRVI Public

    Unsupervised Deep Disentangled Representation of Single-Cell Omics

    Python 44 BSD-3-Clause 3 6 1 Updated Jul 9, 2025
  • spapros Public

    Python package for Probe set selection for targeted spatial transcriptomics.

    Python 38 MIT 7 5 9 Updated Jul 9, 2025
  • ehrapy Public

    Electronic Health Record Analysis with Python.

    Python 294 Apache-2.0 29 41 (1 issue needs help) 3 Updated Jul 9, 2025
  • DRVI_tutorials Public

    All the official tutorials for DRVI

    Jupyter Notebook 0 BSD-3-Clause 0 0 0 Updated Jul 9, 2025
  • CellFlow Public

    Modeling complex perturbations with CellFlow

    Python 64 8 48 12 Updated Jul 9, 2025
  • gh-dashboard Public

    A dashboard of everything in the theislab GitHub repository

    HTML 5 0 0 0 Updated Jul 9, 2025
  • paperbee Public
    Python 48 MIT 3 4 (1 issue needs help) 5 Updated Jul 8, 2025
  • moscot Public

    Multi-omic single-cell optimal transport tools

    Python 164 BSD-3-Clause 10 29 5 Updated Jul 7, 2025
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