dotPlot: DotPlot for the specific pathway

In guokai8/scGSVA: GSVA and UCell signature enrichment analysis for single cell RNA seq

DotPlot for the specific pathway

Description

Intuitive way of visualizing how pathway changes across different identity classes (clusters).

Usage

dotPlot(
  object,
  features,
  group_by = NULL,
  split.by = NULL,
  color = NULL,
  pt.size = 3,
  pt.shape = 19,
  nrow = NULL,
  ncol = NULL,
  basesize = 12
)

Arguments

object	A GSVA objectect or data.frame
features	A vector of features to plot
group_by	Name of one or more metadata columns to group (color) cells by
split.by	Factor to split the groups by
color	Colors to use for identity class plotting
pt.size	Size of the points on the plot
pt.shape	If NULL, all points are circles (default)
nrow	Number of rows
ncol	Number of columns
basesize	base font size, given in pt

Author(s)

Kai Guo

Examples

set.seed(123)
library(scGSVA)
data(pbmc_small)
hsko<-buildAnnot(species="human",keytype="SYMBOL",anntype="KEGG")
res<-scgsva(pbmc_small,hsko)
dotPlot(res,features="Wnt.signaling.pathway")

guokai8/scGSVA documentation built on Nov. 15, 2024, 12:54 a.m.