GitHub - Core-Bioinformatics/ClustAssessPy (original) (raw)

ClustAssessPy

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ClustAssessPy offers a data-driven approach for optimizing parameter values across all stages of graph-based community detection clustering in single-cell datasets. This Python package is a lighter adaptation of ClustAssess (R) [1], incorporating its main functions and can be used by the Scanpy community to guide robust clustering through data-driven selection in all community detection clustering steps:

Installation

ClustAssessPy requires Python 3.7 or newer.

Dependencies

User Installation

We recommend that you download ClustAssessPy on a virtual environment (venv or Conda).

pip install ClustAssessPy

Getting Started

Documentation for the main functions is available here. For a detailed tutorial, click here.

References

[1] Shahsavari, A., Munteanu, A., & Mohorianu, I. (2022). ClustAssess: Tools for Assessing the Robustness of Single-Cell Clustering. https://doi.org/10.1101/2022.01.31.478592