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CellRank

  • Description

    CellRank is a modular framework to study cellular dynamics based on Markov state modeling of multi-view single-cell data.

    CellRank scales to large cell numbers, is fully compatible with the scverse ecosystem, and easy to use. In the backend, it is powered by pyGPCCA (Reuter et al. (2018)).

  • Usage

    To list all executables provided by CellRank, run: $ biogrids-list cellrank Copy to clipboard

  • Usage Notes

    CellRank in BioGrids provide three callable programs:

    python.cellrank

    jupyter.cellrank

    jupyter-lab.cellrank

  • Installation

    Use the following command to install this title with the CLI client: $ biogrids-cli install cellrank Copy to clipboard Available operating systems: Linux 64, OS X INTEL

  • Primary Citation*

    M. Lange, Bergen V, M. Klein, M. Setty, B. Reuter, M. Bakhti, H. Lickert, M. Ansari, J. Schniering, H. B. Schiller, D. Pe'er, and F. J. Theis. 2022. CellRank for directed single-cell fate mapping. Nature methods. 19(2): 159-170.


    • *Full citation information available through

  • Keywords

    scRNA-Seq Analysis

  • Default Versions

    Linux 64:  2.0.7 (1.3 GB)
    OS X INTEL:  2.0.7 (1.0 GB)

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