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pySCENIC

  • Description

    is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which enables biologists to infer transcription factors, gene regulatory networks and cell types from single-cell RNA-seq data.

  • Usage

    To list all executables provided by pySCENIC, run: $ biogrids-list pyscenic Copy to clipboard

  • Usage Notes

    BioGrids pyscenic provides the following callable executables:

    pyscenic

    python.pyscenic

  • Installation

    Use the following command to install this title with the CLI client: $ biogrids-cli install pyscenic Copy to clipboard Available operating systems: Linux 64

  • Primary Citation*

    B. V. de Sande, C. Flerin, K. Davie, M. D. Waegeneer, G. Hulselmans, S. Aibar, R. Seurinck, W. Saelens, R. Cannoodt, Q. Rouchon, T. Verbeiren, D. D. Maeyer, J. Reumers, Y. Saeys, and S. Aerts. 2020. A scalable SCENIC workflow for single-cell gene regulatory network analysis. Nature protocols. 15(7): 2247-2276.


    • *Full citation information available through

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