Hi .
I got 10 annotated bacterial genomes however the annotations are old and i would like to reannotate the whole genomes with the most up to date data. I tried running the pgap pipeline but somhow i get errors and still didnt manage to get it running on ubuntu . I wonder if there are some other free tools available for (re) annotating whole genome sequences , preferably running over a webserver .i tried annotating with prokka on proksee , however the annotations were not as i hoped .For instance i prefer the annotations i get when i blast proteins over the ncbi conserved domain database. im just looking for a tool that automates the process for the whole genome or atleast the proteins that are still annotated as hypothetical.
have a nice day
You may use Bactopia