I had the same question and now it is solved. There are two ways to do it.
Solution 1 (in RStudio):
> datakegg.sets.mm)
Then check "kegg.sets.mm" in the "environment". You can use "search" on the right up corner to find the target and click the "value". It will show in the console.
GAGE has functions for extracting essential genes, but if you just want to see which of your genes overlap with a pathway of interest, you could do something like this below. In the example, the pathway of interest is in "quotes", and you will need to replace YOUR_GENE_SET, Mus.musculus, and kegg.sets.mm with the objects you are working with.
Hi,
I had the same question and now it is solved. There are two ways to do it.
Solution 1 (in RStudio):
Then check "kegg.sets.mm" in the "environment". You can use "search" on the right up corner to find the target and click the "value". It will show in the console.
Solution 2: