How to perform KEGG pathway analysis in R?

Question

[MAPK]

I have a couple hundred nucleotide sequences from a Fungus genome. I want to perform KEGG pathway analysis preferably using R package. Could anyone please suggest me any good R package? Thanks

Answer 1

[Fabio Marroni]

I would suggest KEGGprofile or KEGGrest

Answer 2

[roy.granit]

You can also do that using edgeR

[Fabio Marroni]

That's great, I didn't know... very useful if you are already using edgeR!

Answer 3

[328558608]

check ClusterProfiler http://bioconductor.org/packages/release/bioc/html/clusterProfiler.html and document link http://bioconductor.org/packages/release/bioc/vignettes/clusterProfiler/inst/doc/clusterProfiler.html

Answer 4

[stevenmarkgalway]

enrichR is a pretty good tool