Welcome to CellOracle’s documentation!

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CellOracle is a python library for the in silico gene perturbation analysis using single-cell omics data and gene regulatory network models.

Source code is available at CellOracle GitHub repository and PyPI.

For more information, please read our paper: Dissecting cell identity via network inference and in silico gene perturbation


Please look Changelog page for all updates history of CellOracle package.

  • 02/08/2023: CellOracle paper has been published in Nature article ! It is also highlighted in News and Views . Thank you very much to all contributors and users for your help!!!

  • 02/02/2023: We released celloracle version 0.10.15. We fixed a bug in Motif data loading function.

  • 01/03/2023: We released celloracle version 0.10.14. We added a Xenopus Laevis data.

  • 10/10/2022: We released celloracle version 0.10.12. We added a new function to check distribution range of simulated value. Tutorial is also updated.


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