group_GO | R Documentation |
This function is a wrappper to the function groupGO from the package 'clusterProfiler'. Given a vector of genes/proteins, it returns the GO profile at a specific level. It returns a groupGOResult instance.
group_GO(data, idFrom, orgdb, ont, level, readable = FALSE)
data |
A vector of ID (among ENSEMBL, ENTREZID, GENENAME, REFSEQ, UNIGENE, UNIPROT -can be different according to organisms) |
idFrom |
character indicating the input ID format (among ENSEMBL, ENTREZID, GENENAME, REFSEQ, UNIGENE, UNIPROT) |
orgdb |
annotation Bioconductor package to use (character format) |
ont |
on which ontology to perform the analysis (MF, BP or CC) |
level |
level of the ontolofy to perform the analysis |
readable |
TRUE or FALSE (default FALSE) |
GO profile at a specific level
Florence Combes
utils::data(Exp1_R25_prot, package='DAPARdata') obj <- Exp1_R25_prot ggo<-group_GO(data=Biobase::fData(obj)$Protein.IDs, idFrom="UNIPROT", orgdb="org.Sc.sgd.db", ont="MF", level=2)
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