List of genes on which the Profile has to be based
Type of identifiers for the genes. May be 'Entrez' (default), BiocProbes or GoTermsFrame (see details below).
Ontology on which the profile has to be built
Level of the ontology at which the profile has to be
Name of a Bioconductor's organism annotations package
('org.Xx-eg-db'). This field must be provided if the gene list passed
to the function is either a character vector of 'Entrez' (NCBI) identifiers or a character vector of probe names
Name of Bioconductor's microarray annotations package. This field must be provided if the gene list passed to the function is a character vector of probe names
Set to 'TRUE' if the profile has to appear ordered by the category names
If it is not NULL it must be a vector of GO categories that defines the level at where the profile is built
Set to 'TRUE' if empty categories should appear in the profile
Set to 'TRUE' if the profile has to contain the names of categories
Set to 'TRUE' if NAs should be removed
An object of class GOProfile (one or more data frames in a list named by the ontologies)
The function admits three types of entries: Entrez ('Entrez'), Bioconductor probe set names ('BioCprobes')
or a special type of data frames ('GOTermsFrames'). If the identifier type are 'BioCprobes'
then an annotation package name must be provided too.
Sanchez-Pla, A., Salicru, M. and Ocana, J.
Statistical methods for the analysis of high-throughput data based on
functional profiles derived from the gene ontology.
Journal of Statistical Planning and Inference,
Volume 137, Issue 12, Pages 3975-3989, 2007