Hi,
Is it possible to merge OTU’s by providing a file that says which OTU’s should merge together, rather than moving to a higher similarity cutoff? I took all my rep.OTU and did a blast search and found that for a few OTU’s the best blast hit is identical, only the bit scores drop slightly. I am assuming that the different rep.OTU with the same best blast match are infact the same, but they form two different OTU’s due to sequencing errors.
Thanks very much,
Ameet