I want to analyze amplicon metagenome data from PacBio platform

1

Dear colleague,
I use a Pacbio platform to generate full-length 16S amplicons data from environmental samples. I want to use Mothur to analyze the data. Could you advise me which database to use for the following steps:
sequence alignment
Chimaera
Classification
Thank you in advance for the support

Kind Regards

2

Hi Gilbert,

You’d use the same databases as we use with the MiSeq database. Of course, you’d need to customize the steps for full length sequences - namely, if align.seqs you’d use the full length rather than the V4 database.

Pat

3

Thank you for the prompt reply

Gilbert

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