I have downloaded the microbial genome using the repophlan_get_microbes.py. and got four folder:
faa ffn fna frn
With in the fna folder I got the files like this:
G001284865.fna.bz2 G002910165.fna.bz2 G009390615.fna.bz2 G001284885.fna.bz2 G002910195.fna.bz2 G009390655.fna.bz2..
Could you please help me now I can filter these genome files based on the quality score? as they have shown in this publication (https://www.nature.com/articles/s41586-020-2095-1)
and further how I can make single nucleotide database to do blastn?
Many thanks for your help and time.