cell.type.pred {iCellR}

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 iCellR and genes and provides a heatmap.

Usage

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

Arguments

immgen.data

Choose from ,"GSE109125","GSE122108","GSE122597","GSE124829","GSE15907","GSE37448", rna", "uli.rna" or "mca", default = "rna"

gene

A set of gene names to used to predict cell type.

top.cell.types

Top cell types sorted by cumulative expression, default = 25.

plot.type

Choose from "heatmap" od "point.plot", default = "heatmap"

heat.colors

Colors for heatmap, default = c("blue" ,"white", "red").

Value

An object of class iCellR