cell.type.pred: Create heatmaps or dot plots for genes in clusters to find...

In rezakj/iCellR: Analyzing High-Throughput Single Cell Sequencing Data

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

rezakj/iCellR documentation built on March 29, 2024, 6:55 p.m.