The Python implementation of the LEMUR method to analyze multi-condition single-cell data. For the more complete version in R, see github.com/const-ae/lemur. To learn more check-out the function documentation and the tutorial at pylemur.readthedocs.io. To check-out the source code or submit an issue go to github.com/const-ae/pyLemur

Ahlmann-Eltze C, Huber W (2024). “Analysis of multi-condition single-cell data with latent embedding multivariate regression.” bioRxiv. doi:10.1101/2023.03.06.531268.

You need to have Python 3.10 or newer installed on your system. There are several alternative options to install pyLemur:

Install the latest release of pyLemur from PyPI:

pip install pyLemur

Alternatively, install the latest development version directly from Github:

pip install git+https://github.com/const-ae/pyLemur.git@main

For more information on the functions see the API docs and the tutorial.

For questions and help requests, you can reach out in the scverse discourse. If you found a bug, please use the issue tracker.

Build the documentation locally

cd docs
make html
open _build/html/index.html

Run the unit tests

pytest

Run pre-commit hooks manually

pre-commit run --all-files

or individually

ruff check