VariableGenePlot: View variable genes

In mayer-lab/SeuratForMayer2018: Seurat : R Toolkit for Single Cell Genomics

Description

View variable genes

Usage

VariableGenePlot(object, do.text = TRUE, cex.use = 0.5,
  cex.text.use = 0.5, do.spike = FALSE, pch.use = 16, col.use = "black",
  spike.col.use = "red", plot.both = FALSE, do.contour = TRUE,
  contour.lwd = 3, contour.col = "white", contour.lty = 2,
  x.low.cutoff = 0.1, x.high.cutoff = 8, y.cutoff = 1,
  y.high.cutoff = Inf)

Arguments

object	Seurat object
do.text	Add text names of variable genes to plot (default is TRUE)
cex.use	Point size
cex.text.use	Text size
do.spike	FALSE by default. If TRUE, color all genes starting with ^ERCC a different color
pch.use	Pch value for points
col.use	Color to use
spike.col.use	if do.spike, color for spike-in genes
plot.both	Plot both the scaled and non-scaled graphs.
do.contour	Draw contour lines calculated based on all genes
contour.lwd	Contour line width
contour.col	Contour line color
contour.lty	Contour line type
x.low.cutoff	Bottom cutoff on x-axis for identifying variable genes
x.high.cutoff	Top cutoff on x-axis for identifying variable genes
y.cutoff	Bottom cutoff on y-axis for identifying variable genes
y.high.cutoff	Top cutoff on y-axis for identifying variable genes

mayer-lab/SeuratForMayer2018 documentation built on May 25, 2019, 9:34 p.m.