I am new in NGS technology,
So far i have ddRAD data, I mapped then closest relative species (it worked nicely). Now I got whole genome data from one of our collaborator of the same species. I think it will improve my results. this is a MobiSeq-whole genome sequencing data ( short Reads)
a. Which assembler could be the best choice?
b.Is there any assembler where K-mer will be selected by itself?
suggestion and help please