Hi and thanks for the continued development and maintenance of DIAMOND.
I'm interested in speeding up searches against NCBI nr. Ideally I would like to get only the top 10-20 hits, even if they are not very good.
I've seen here that I can use the --fast mode, which afaik is optimized for hits with >90% identity. I have also seen you mention that -g100 can speed things up if you only need the best hits for each query. I didn't fully undertood what it did exactly, or whether it came with a lower sensitivity against low identity hits.
Could you elaborate a bit on when to set -g lower than the default and the expected consecuences of doing so?
Hi and thanks for the continued development and maintenance of DIAMOND.
I'm interested in speeding up searches against NCBI nr. Ideally I would like to get only the top 10-20 hits, even if they are not very good.
I've seen here that I can use the
--fastmode, which afaik is optimized for hits with >90% identity. I have also seen you mention that-g100can speed things up if you only need the best hits for each query. I didn't fully undertood what it did exactly, or whether it came with a lower sensitivity against low identity hits.Could you elaborate a bit on when to set
-glower than the default and the expected consecuences of doing so?Thanks in advance