Hello,
I have an Ion Torrent run that I have classified with both the SILVA and GG databases. I am particularly interested in the cyanobacteria sequences which in both databases largely return unknowns for my data. I am trying to figure out how to remove those sequences from my summary taxonomy file to create a fasta to BLAST. Does anyone know a way to do this? I think if I create an accnos file from the taxonomy file of my cyano sequences and run get.seqs with my group file I can remove just those sequences then convert to a fasta. Anyone know if I’m on the right track or of another way to do this?
Thanks for any help