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@theislab

Theis Lab

Institute of Computational Biology

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  1. single-cell-tutorial single-cell-tutorial Public

    Single cell current best practices tutorial case study for the paper:Luecken and Theis, "Current best practices in single-cell RNA-seq analysis: a tutorial"

    Jupyter Notebook 1.4k 453

  2. single-cell-best-practices single-cell-best-practices Public

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

    Jupyter Notebook 748 174

  3. scvelo scvelo Public

    RNA Velocity generalized through dynamical modeling

    Python 412 102

  4. scarches scarches Public

    Reference mapping for single-cell genomics

    Jupyter Notebook 332 51

  5. cellrank cellrank Public

    CellRank: dynamics from multi-view single-cell data

    Python 343 47

  6. scib scib Public

    Benchmarking analysis of data integration tools

    Python 294 63

Repositories

Showing 10 of 211 repositories
  • ehrdata Public

    A datastructure for EHR data

    theislab/ehrdata’s past year of commit activity
    Python 5 Apache-2.0 1 9 3 Updated Oct 8, 2024
  • moscot Public

    Multi-omic single-cell optimal transport tools

    theislab/moscot’s past year of commit activity
    Python 112 BSD-3-Clause 9 42 6 Updated Oct 8, 2024
  • moscot_notebooks Public

    Analysis notebooks using the moscot package

    theislab/moscot_notebooks’s past year of commit activity
    Jupyter Notebook 7 BSD-3-Clause 3 2 3 Updated Oct 8, 2024
  • gh-dashboard Public

    A dashboard of everything in the theislab GitHub repository

    theislab/gh-dashboard’s past year of commit activity
    HTML 1 0 0 0 Updated Oct 8, 2024
  • spatialdata-db Public
    theislab/spatialdata-db’s past year of commit activity
    Jupyter Notebook 1 BSD-3-Clause 0 25 1 Updated Oct 8, 2024
  • ehrapy Public

    Electronic Health Record Analysis with Python.

    theislab/ehrapy’s past year of commit activity
    Python 207 Apache-2.0 19 40 4 Updated Oct 8, 2024
  • anndata2ri Public

    Convert between AnnData and SingleCellExperiment

    theislab/anndata2ri’s past year of commit activity
    Python 126 GPL-3.0 16 13 0 Updated Oct 8, 2024
  • 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 3 0 Updated Oct 8, 2024
  • multigrate Public

    Multigrate: multiomic data integration for single-cell genomics

    theislab/multigrate’s past year of commit activity
    Python 13 BSD-3-Clause 6 5 2 Updated Oct 7, 2024
  • spapros Public

    Python package for Probe set selection for targeted spatial transcriptomics.

    theislab/spapros’s past year of commit activity
    Python 23 MIT 6 3 10 Updated Oct 7, 2024
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