DotPlot: Dot plot visualization

In nukappa/seurat_v2: Seurat : R toolkit for single cell genomics

Description

Intuitive way of visualizing how gene expression changes across different identity classes (clusters). The size of the dot encodes the percentage of cells within a class, while the color encodes the AverageExpression level of 'expressing' cells (green is high).

Usage

DotPlot(object, genes.plot, cex.use = 2, cols.use = NULL,
  thresh.col = 2.5, dot.min = 0.05, group.by = NULL, ...)

Arguments

object	Seurat object
genes.plot	Input vector of genes
cex.use	Scaling factor for the dots (scales all dot sizes)
cols.use	Colors to use for plotting
thresh.col	The raw data value which corresponds to a red dot (lowest expression)
dot.min	The fraction of cells at which to draw the smallest dot (default is 0.05)
group.by	Group (color) cells in different ways (for example, orig.ident)
...	additional parameters to pass to FetchData (for example, use.imputed, use.scaled, use.raw)

Value

Only graphical output

nukappa/seurat_v2 documentation built on May 24, 2019, 9:57 a.m.