combGO_plot: Combine GO Results from DE analysis into one plot
In kevincjnixon/BinfTools: Useful functions for standard analyses

combGO_plot

R Documentation

Combine GO Results from DE analysis into one plot

Description

This function will combine GO results from GO_GEM when performed on DEGs into a single plot.

Usage

combGO_plot(
  GOresList,
  title = "GO results",
  ts = c(10, 500),
  sig = TRUE,
  numTerm = 10,
  upcols = c("lightpink", "red"),
  downcols = c("lightblue", "blue"),
  labs = c("Downregulated", "Upregulated"),
  textsize = NULL,
  retGP = FALSE
)

Arguments

`GOresList`	list of GO_GEM results (set returnRes=TRUE) of length 2. Best for DEG GO results, where the first entry in the list is downregulated, and the second entry in the list is upregulated
`title`	Character for the plot title
`ts`	numeric vector of length 2 with the minimum and maximum term sizes for plotting. Default is c(10,500)
`sig`	Boolean indicating if top significant results should be plotted. Set to FALSE to plot top enriched results
`numTerm`	Numeric indicating the number of top terms to plot. Default is 10.
`upcols`	character vector of length 2 indicating the colour for upregulated enrichment and significance bars
`downcols`	character vector of length 2 indicating the colour for downregulated enrichment and significance bars
`labs`	character vector of length 2 indicating the specific legend labels for the entries in GOresList. Default=c("Downregulated","Upgreulated")
`textsize`	numeric indicating text size for plot. Leave NULL to keep default size.
`retGP`	Booliean indicating if the ggplot2 object should be returned for further editing. Default=FALSE.