We’re using pacbio full-length 16S data in mothur to great success. However, when we do a multi-sample comparison, we have to construct all of the group files by hand. Fastq.info should be able to do this but it expects that the fastqFiles.file would have 3 columns: group, forward, and reverse read. With Pacbio there IS no forward/reverse read - the smartbell sequencing gives you a CSS (circular consensus). Is there a way that the next version of mothur could support single-read pacbio sequence in fastq.info (when the pacbio=T is set, of course)?
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Thanks for the suggestion. Yes, we can add this to our next version. You can follow the progress here, https://github.com/mothur/mothur/issues/649.