Cell Cell Communication Python Packages

liana

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

laris

LARIS maps ligand-receptor signalling in spatial transcriptomics within and across tissue states

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.

spatialdm

Spatial direct messaging detected by bivariate Moran

finest

Fine-grained Spatial Transcriptomics by integrating paired histology image

edgemap

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

ncem

Learning cell communication from spatial graphs of cells

interscale

InterScale: multi-scale cellular interaction analysis model for spatial transcriptomics