identifyCommunicationPatterns: Identification of major signals for specific cell groups and...

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

Identification of major signals for specific cell groups and general communication patterns

Description

Identification of major signals for specific cell groups and general communication patterns

Usage

identifyCommunicationPatterns(
  object,
  slot.name = "netP",
  pattern = c("outgoing", "incoming"),
  k = NULL,
  k.range = seq(2, 10),
  heatmap.show = TRUE,
  color.use = NULL,
  color.heatmap = "Spectral",
  title.legend = "Contributions",
  width = 4,
  height = 6,
  font.size = 8
)

Arguments

object	CellChat object
slot.name	the slot name of object that is used to compute centrality measures of signaling networks
pattern	"outgoing" or "incoming"
k	the number of patterns
k.range	a range of the number of patterns
heatmap.show	whether showing heatmap
color.use	the character vector defining the color of each cell group
color.heatmap	a color name in brewer.pal
title.legend	the title of legend in heatmap
width	width of heatmap
height	height of heatmap
font.size	fontsize in heatmap

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