I'm using Bioconductor, and the packages
biomaRt. I'm about to conduct my first GO Enrichment analysis, but I'm a little lost on how to correctly assign the
mapping database for my study organisms (Three spined stickleback; Gasterosteus aculeatus). I've seen that the human one is
"org.Hs.eg.db", and the mouse database is used in the workflow I've found below;
"org.Mm.eg". My guess would be
"org.Ga.eg", but I'd like to confirm this if possible.
go_data <- new("topGOdata", ontology = "BP", allGenes = gene_universe, nodeSize = 5, annotationFun = annFUN.org, mapping = "org.Mm.eg", ID = "ensembl")
I've had a look on the ensembl website, but I cannot seem to find the appropriate information. So my main question is where on ensembl would I find this information?