Gff2GeneTable is not inside clusterProfiler: > ls("package:clusterProfiler") [1] "compareCluster" "enrichGO" "enrichKEGG" "groupGO" "plot" "show" [7] "summary So I have the same problem (Error: could not find function "Gff2GeneTable") I'm using MacOSX. I installed clusterProfiler like this: source("http://bioconductor.org/biocLite.R") biocLite("clusterProfiler") I do not understand why the function Gff2GeneTable is not in the package clusterProfiler? Thanks in advance Jose Guillen