TSNEPlot2: Plot tSNE map, with probabilities for computational cell...

In ncchung/SeuratAddon: Unsupervised evaluation of cell identities in Seurat

Description

Graphs the output of a tSNE analysis Cells are colored by their identity class. Based on Seurat::TSNEPlot.

Usage

TSNEPlot2(object, ident.threshold = 0.9, do.label = FALSE,
  pt.size = 1, label.size = 4, cells.use = NULL, colors.use = NULL,
  ...)

Arguments

object	Seurat object
ident.threshold	A probability threshold for cell identities, using [e-mail]["ident_prob"].
do.label	FALSE by default. If TRUE, plots an alternate view where the center of each cluster is labeled
pt.size	Set the point size
label.size	Set the size of the text labels
cells.use	Vector of cell names to use in the plot.
colors.use	Manually set the color palette to use for the points
...	Additional parameters to DimPlot, for example, which dimensions to plot.

Details

This function is a wrapper for DimPlot2. See ?DimPlot2 for a full list of possible arguments which can be passed in here.

See Also

DimPlot2

ncchung/SeuratAddon documentation built on May 3, 2019, 3:17 p.m.