extractEnrichedLR_internal: Identify all the significant interactions (L-R pairs) and...

In sqjin/CellChat: Inference and analysis of cell-cell communication from single-cell and spatial transcriptomics data

Identify all the significant interactions (L-R pairs) and related signaling genes for a given signaling pathway

Description

Identify all the significant interactions (L-R pairs) and related signaling genes for a given signaling pathway

Usage

extractEnrichedLR_internal(
  net,
  LR,
  DB,
  signaling,
  enriched.only = TRUE,
  thresh = 0.05
)

Arguments

net, LR, DB	object@net object@LR object@DB
signaling	a char vector containing signaling pathway names for searching
enriched.only	whether only return the identified enriched signaling genes in the database. Default = TRUE, returning the significantly enriched signaling interactions
thresh	threshold of the p-value for determining significant interaction

Value

a list: list(geneLR, pairLR.name.use)

sqjin/CellChat documentation built on Nov. 10, 2023, 4:29 a.m.