GO analysis for Arabidopsis with Goseq

[melis]

Hi all,
I am trying to do a GO analysis for Arabidopsis RNA-seq data with Goseq. The software needs gene length information for all the genes but I cannot find it anywhere. I used the supportedGenomes() function but it gave an error message as following:

Error in getNodeSet(doc, "//table[@border='1']")[[1]] :
subscript out of bounds

and I cannot find at which database and gene ID code Arabidopsis is. I cannot find it with supportedGeneIDs() function also.

Anyone any idea?
Good luck with any problem that brings you here!
Melis

[chadn737]

Unfortunately (from my past experience with GOseq) you are likely going to have to build your input files from scratch. If you send me your email via PM I can send you some files with TAIR10 gene lengths that will hopefully get you started on the right path.