plotDistFromCellInfoTable: plot distribution using cell info table

In Japrin/sscVis: simpler single cell RNAseq data Visualization

plot distribution using cell info table

Description

plot distribution using cell info table

Usage

plotDistFromCellInfoTable(
  obj,
  out.prefix,
  plot.type = "barplot",
  facet.ncol = 3,
  plot.width = 10,
  plot.height = 5,
  test.method = "fisher.test",
  group.filter = NULL,
  sort.freq = F,
  bar.position = position_dodge2(),
  par.stat = list(),
  min.NTotal = 0,
  cmp.var = "Species",
  group.var = "ClusterID",
  donor.var = "donor",
  verbose = F,
  ...
)

Arguments

obj	object; can be class of Seurat, SingleCellExperiment or data.frame;
out.prefix	character; output prefix.
plot.type	character; (default: "barplot")
facet.ncol	integer; (default: 3)
plot.width	integer; (default: 10)
plot.height	integer; (default: 5)
test.method	character; (default: "fisher.test")
group.filter	character; (default: NULL)
sort.freq	logical; (default: FALSE)
bar.position	; passed to ggbarplot's position (default: position_dodge2())
par.stat	parameter passed to stat_compare_means (default: list() )
min.NTotal	minimum number of cells to calculate frequency (default: 0 )
cmp.var	character; (default: "Species")
group.var	character; (default: "ClusterID")
donor.var	character; (default: "donor")
verbose	logical; (default: FALSE)
...	parameter passed to ggpubr

Details

plot distribution

Japrin/sscVis documentation built on March 5, 2025, 10:23 a.m.