Plot.deg: Plot the DEGs before or after cross-validation

In menggf/DEComplexDisease: A tool for differential expression analysis and DEGs based investigation to complex diseases by bi-clustering analysis

Plot the DEGs before or after cross-validation

Description

Plot the binary differential expression matrix transformed by bi.deg

Usage

## S3 method for class 'deg'
Plot(input, ann = NULL, col.order = NULL, show.genes = NULL,
  max.n = 30, up.col = "red", down.col = "blue", ...)

Plot(...)

Arguments

input	a 'deg' object returned by bi.deg
ann	a data.frame for the patient annotation
col.order	the order of column in heatmap
show.genes	the gene ids to plot
max.n	the maximum number of genes to plot
up.col	the color for up-regulated genes
down.col	the color for down-regulated genes
...	other setting of 'oncoPrint'

Details

This function applied the function of oncoPrint from 'ComplexHeatmap' to dispaly ownership of the DEGs. The output is a heatmap plots where the genes with maximum observations are showed.

Value

A heatmap plot

Author(s)

Guofeng Meng

Examples

Plot(deg,ann.er, max.n=5)
Plot(deg.spc, ann.er, max.n=5)

menggf/DEComplexDisease documentation built on June 30, 2022, 1:47 p.m.