I'm using clusterProfiler to do gene enrichment for a non-model species. After I annotated my gene sets to K numbers, I noticed different genes might be annotated as the same K number. Should I get the unique K number set to do gene enrichment or use all K number to do functional enrichment? Will this influence my result?
And I also need to get the K number for my whole genome to make it as the background or reference, so I also want to know should I get the unique K number set?
Thanks in advance! Code should be placed in three backticks as shown below
# include your problematic code here with any corresponding output # please also include the results of running the following in an R session sessionInfo( )