BLAST

Commands in mothur
#1

Hey,

Completely new to Mothur and want to BLAST to find the nearest neighbours of my sequences. I was just wondering how it would be possible to do this?

Thanks so much!

Gemma

#2

You could do that with classify.seqs (https://mothur.org/wiki/Classify.seqs#search.3Dblast.2C_match.2C_mismatch.2C_gapopen.2C_and_gapextend). I would point out that this is a pretty inefficient and error prone way of doing classification. The default method, wang, is far better for classification.

Pat