[BioC] how to fetch GO categories from Chinese hamster genome

upendra kumar devisetty udevisetty at ucdavis.edu
Wed Sep 10 20:32:02 CEST 2014


I have been trying to generate GO category table for Chinese hamster genome using getgo function in goseq package. Even though chinese hamster is said to be included in the supportedGenomes() function of goseq, i am having trouble generating the GO category table. Does anybody have experience do this.

Here is what i have trying without much success...

genes <- c("EGV95676", "EGW04231", "EGV99641") # example gene list
getgo(genes, "criGri1", "ensGene")

And i get this error - 

Error in library(paste(orgstring, "db", sep = "."), character.only = TRUE) : 
  there is no package called ‘NA.db’

Upendra Kumar Devisetty, Ph.D
Postdoctoral Scholar
Dept. of Plant Biology, UC Davis
Davis, CA 95616

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