liana-tutorials

This repository hosts the tutorials for LIANA+.

The notebooks live in notebooks/ and are rendered as part of the LIANA+ documentation: https://liana-py.readthedocs.io

They are included in the main liana-py repository as a git submodule (docs/tutorials), so the rendered versions in the docs always track this repository.

Cite LIANA+:

@article {Dimitrov2024,
    author = {Dimitrov, Daniel and Sch{\"a}fer, Philipp Sven Lars and  Farr, Elias and Rodriguez-Mier, Pablo and Lobentanzer, Sebastian and Badia-i-Mompel, Pau and Dugourd, Aurelien and Tanevski, Jovan and Ramirez Flores, Ricardo Omar and Saez-Rodriguez, Julio},
    title = {LIANA+ provides an all-in-one framework for cell--cell communication inference},
    journal = {Nature Cell Biology},
    year = {2024},
    volume = {26},
    number = {9},
    pages = {1613--1622},
    DOI = {10.1038/s41556-024-01469-w},
    URL = {https://doi.org/10.1038/s41556-024-01469-w}
}

@article {Dimitrov2022,
    author = {Dimitrov, Daniel and T{\"u}rei, D{\'e}nes and Garrido-Rodriguez, Martin and Burmedi, Paul L. and Nagai, James S. and Boys, Charlotte and Ramirez Flores, Ricardo O. and Kim, Hyojin and Szalai, Bence and Costa, Ivan G. and Valdeolivas, Alberto and Dugourd, Aur{\'e}lien and Saez-Rodriguez, Julio},
    title = {Comparison of methods and resources for cell-cell communication inference from single-cell RNA-Seq data},
    journal = {Nature Communications},
    year = {2022},
    volume = {13},
    number = {1},
    pages = {3224},
    DOI = {10.1038/s41467-022-30755-0},
    URL = {https://doi.org/10.1038/s41467-022-30755-0}
}