I know this question has been asked before a long time ago and I don't see an answer of that question in the mailing list or in the vignette of GOsemsim package. So I was wondering what is the easiest possible way of calculating GO semantic similarity value for orthologus gene pairs between two species using the above R package or any other package you know of. I am not doing this for less annotated species I need to calculate that for orthologus genes between Human and Mouse (both of which are well annotated IMHO). So I would much appreciate it if anyone who has already done this before can point me to a resource which already has pre-calculated semantic similarity values for Mouse and Human orthologues or has inbuilt code to do that.
Thanks & regards