I would like to compare genome structure (gene models) annotation of Mus Musculus and Mus Spretus in terms of gene order, chromosome location etc... . So at the end i would like to come up how similar they are. I have both gtf files from Ensemble.
I have checked that link, but most of the links are death and old. Some tools or packages might have been published for the last 7 years ?
Thanks for the help.