I'm currently using PSIBLAST on a single query string to produce a PSSM which is used as output to a number of ML tools (PSIPRED, DISOPRED, etc.). I'd like to make this more efficient for running about 500k such sequences, but I need an individual PSSM output for each query string.
I know that the BLAST algorithm is made more efficient when running multiple query strings at the same time, but the
psiblast CLI program only creates a single PSSM output for all query sequences when run this way. Is there a way around this?
Thanks for reading!