printProfiles: Print functional profiles

In alexsanchezpla/goProfiles: goProfiles: an R package for the statistical analysis of functional profiles

Description

Prints basic functional profiles created with the 'basicProfile' instruction. Allows for several formatting operations such as truncating long labels, removing empty categories or choosing between absolute or relative frequencies. If several profiles have to be printed together they must be first merged using the 'mergeProfiles' function.

Usage

printProfiles(aProf, aTitle = "Functional Profile", anOnto = NULL, percentage = FALSE, 
      Width=25, emptyCats=FALSE)

Arguments

aProf	Functional profile to plot
aTitle	Title for the figures
anOnto	Ontology (to appear in the title)
percentage	Plot absolute or relative frequencies (not summing to 100)
Width	Maximum width for the description of GO categories
emptyCats	Set to 'TRUE' if empty categories should appear in the profile

Value

The printout

Author(s)

Alex Sanchez

Examples

require(goProfiles)
data(prostateIds)
welsh.MF <- basicProfile (welsh01EntrezIDs[1:100], onto="MF", level=2, orgPackage="org.Hs.eg.db") 
singh.MF <- basicProfile (singh01EntrezIDs[1:100], onto="MF", level=2, orgPackage="org.Hs.eg.db") 
printProfiles(welsh.MF,'Functional profiles for Welsh dataset',percentage=TRUE, anOnto='MF')
welsh.singh.MF <-mergeProfilesLists(welsh.MF, singh.MF, profNames=c("Welsh", "Singh"))
printProfiles(welsh.singh.MF, percentage=TRUE, emptyCats=TRUE)

alexsanchezpla/goProfiles documentation built on May 28, 2019, 4:54 p.m.