I would like to calculate GERP scores for few genomic regions from non-model organism A (mammal). Lets assume I will get genomes from 10 other species, be it closely related to A, good quality genomic sequence, etc.
- can I get some precalculated distance trees from some database?
- if not, what is the proper method to calculate distance tree for my set of species?
- assuming I got a tree with 20 species in it, but want to create genomic alignments for just 10+1 species, can I still use this tree or GERP will crash?
I will be also very thankful for any working GERP HowTos.
Got one dictance tree here: http://genomewiki.ucsc.edu/index.php/Phylogenetic_Tree