SEPA (version 1.2.2)

windowGOvisualize: windowGOvisualize

Description

Visualize results of GO analysis with moving window for transition patterns

Usage

windowGOvisualize(GOres, GOTerm = NULL, topterm = 2, mode = "Heatmap")

Arguments

GOres

The direct output of windowGOanalysis function.

GOTerm

The name of GO term to be displayed. If NULL, top GO terms will be displayed instead

topterm

The number of top GO terms to be displayed. This argument only works when GOTerm is NULL.

mode

To plot in heatmap or line graph. Either "Heatmap" or "Line".

Value

A ggplot2 object.

Details

This function is specifically designed to visualize the results obtained from windowGOanalysis function. Users can choose to visualize specific GO terms or top GO terms in each time window

Examples

library(topGO)
data(HSMMdata)
pattern <- pseudotimepattern(HSMMdata,pseudotime)
windowGOvisualize(windowGOanalysis(pattern,type="constant_up"))