goProfiles (version 1.34.0)

printProfiles: Print 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

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)