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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 457

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

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

    Jupyter Notebook 765 181

  3. scvelo scvelo Public

    RNA Velocity generalized through dynamical modeling

    Python 416 102

  4. scarches scarches Public

    Reference mapping for single-cell genomics

    Jupyter Notebook 335 51

  5. cellrank cellrank Public

    CellRank: dynamics from multi-view single-cell data

    Python 347 46

  6. scib scib Public

    Benchmarking analysis of data integration tools

    Python 298 63

Repositories

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  • theislab/task-dge-perturbation-prediction-analysis’s past year of commit activity
    Jupyter Notebook 3 MIT 0 0 0 Updated Oct 30, 2024
  • theislab/archmap_data’s past year of commit activity
    Python 1 0 1 1 Updated Oct 30, 2024
  • ehrapy Public

    Electronic Health Record Analysis with Python.

    theislab/ehrapy’s past year of commit activity
    Python 222 Apache-2.0 20 43 4 Updated Oct 30, 2024
  • ehrapy-tutorials Public

    Tutorials for ehrapy

    theislab/ehrapy-tutorials’s past year of commit activity
    Jupyter Notebook 7 Apache-2.0 2 0 1 Updated Oct 30, 2024
  • theislab/pertpy-reproducibility’s past year of commit activity
    Jupyter Notebook 0 Apache-2.0 0 0 0 Updated Oct 30, 2024
  • multigrate_reproducibility Public

    Reproducing results from Multigrate paper

    theislab/multigrate_reproducibility’s past year of commit activity
    Jupyter Notebook 2 0 0 0 Updated Oct 30, 2024
  • gh-dashboard Public

    A dashboard of everything in the theislab GitHub repository

    theislab/gh-dashboard’s past year of commit activity
    HTML 2 0 0 0 Updated Oct 30, 2024
  • anndata2ri Public

    Convert between AnnData and SingleCellExperiment

    theislab/anndata2ri’s past year of commit activity
    Python 128 GPL-3.0 16 13 0 Updated Oct 30, 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 30, 2024
  • moscot Public

    Multi-omic single-cell optimal transport tools

    theislab/moscot’s past year of commit activity
    Python 112 BSD-3-Clause 9 37 4 Updated Oct 30, 2024