AUCell

CellChat — R package for inference, analysis, and visualization of cell-cell communication networks from single-cell RNA-seq data. Uses a curated ligand-receptor database (CellChatDB) to quantify sign

2 shared topics • 1 shared operation

Decoupler -- Python framework for inferring biological activities from omics data. Estimates transcription factor (TF) activities, pathway activities, and ligand-receptor interactions from gene expres

2 shared topics • 1 shared operation

NicheNet — R-based computational framework for studying intercellular communication from single-cell transcriptomics. Predicts which ligands expressed by sender cell types regulate target gene express

2 shared topics • 1 shared operation

pySCENIC — Python implementation of SCENIC for single-cell gene regulatory network inference and regulon analysis. Implements a three-step pipeline: GRN inference via GRNBoost2 or GENIE3, cis-regulato

2 shared topics • 1 shared operation

SCENIC (pySCENIC) — gene regulatory network inference and transcription factor regulon analysis for single-cell RNA-seq data. Infers TF-target gene networks using GRNBoost2/GENIE3, refines regulons vi

2 shared topics • 1 shared operation