imm.gen: Create heatmaps or dot plots for genes in clusters to find...

In rezakj/scSeqR: scSeqR; a toolkit to analyze single cell sequencing data types (i.e scRNA-seq) and large numeric matrix files.

Create heatmaps or dot plots for genes in clusters to find thier cell types using ImmGen data.

Description

This function takes an object of class scSeqR and genes and provides a heatmap.

Usage

imm.gen(immgen.data = "rna", gene = "NULL", top.cell.types = 50,
  plot.type = "heatmap", heat.colors = c("blue", "white", "red"))

Arguments

immgen.data	Choose from "rna" od "uli.rna", defult = "rna"
gene	A set of gene names to used to predict cell type.
top.cell.types	Top cell types sorted by cumulative expression, defult = 25.
plot.type	Choose from "heatmap" od "point.plot", defult = "heatmap"
heat.colors	Colors for heatmap, defult = c("blue" ,"white", "red").

Value

An object of class scSeqR

Examples

## Not run: 
imm.gen(immgen.data = "uli.rna", gene = MyGenes, plot.type = "heatmap")
imm.gen(immgen.data = "rna", gene = MyGenes, plot.type = "point.plot")

## End(Not run)

rezakj/scSeqR documentation built on March 28, 2022, 12:17 p.m.