createTFNetwork: Create transcription factor network.

In edroaldo/fusca: Framework for Unified Single-Cell Analysis

Create transcription factor network.

Description

Create and plot the transcription factor network for the selected interaction and genes. Save plot to file. Load the ggnetwork package before using this function.

Usage

createTFNetwork(
  object,
  assay.type = "RNA",
  apathways,
  grn.data,
  interactions,
  genelist,
  celltype,
  column = "celltype5"
)

Arguments

object	CellRouter object.
assay.type	character; the type of data to use.
apathways	list; the pathways as calculated by the activeSignaling function.
grn.data	list; the gene regulatory network as created by the buildGRN function.
interactions	character; the interactions considered in the analysis.
genelist	character vector; the genes considered in the analysis.
celltype	character; the cell type.
column	character; column corresponding to the cell type.

Value

list; the igraph transcription factor network and the plot.

edroaldo/fusca documentation built on March 1, 2023, 1:43 p.m.