at my Institute we are now aiming at detecting viral nucleic acids in metagenomic aDNA samples. As a guy who is totaly new to all the bioinformatics stuff at the moment I'am just looking for programs who seem to be usefull. The main Idea of the identification is to throw all the reads form the sequencer in an multiple alignment software like diamond and blast them against a db. Maybe we are going to do some de-novo assembly befor with meta velvet. Has anyone of you ever done this or is working with metagenomic samples on a familiar task? What programs are you using and is there a better approach?
With kind regards,