Cell Cell Communication Python Packages

liana

LIANA+: an all-in-one framework for cell-cell communication

nichenetpy

nichenetpy: the python implementation of the NicheNet method. The goal of NicheNet is to study intercellular communication from a computational perspective. NicheNet uses human or mouse gene expression data of interacting cells as input and combines this with a prior model that integrates existing knowledge on ligand-to-target signaling paths. This allows to predict ligand-receptor interactions that might drive gene expression changes in cells of interest.

edgemap

Python package for partitioning GWAS heritability into cell-intrinsic (node) and cell-cell communication (edge) components from spatial transcriptomics.

spatialdm

Spatial direct messaging detected by bivariate Moran

finest

Fine-grained Spatial Transcriptomics by integrating paired histology image

laris

LARIS enables accurate and efficient ligand and receptor interaction analysis in spatial transcriptomics

ncem

Learning cell communication from spatial graphs of cells

interscale

Multi-scale cell interaction model for spatial transcriptomics data.

liana-py

LIANA+: an all-in-one framework for cell-cell communication