I am looking for some advice regarding taxonomic classification of MAGs from skin Metagenomics samples.
I have binned my contigs using CONCOCT via Anvio which gives me completeness, redundancy and taxon information for each bin. I then dereplicated the genome bins and now have representative genomes from different skin states. The genomes include both fungal and bacterial genomes. I have taxon information for the dereplicated genomes as I know what bin they came from and the taxon of that bin, but is there another way to get strain resolution for my MAGs? I need any databases etc to contain fungal info as well as prokaryotic and achaean info.
Thanks in advance!