mothur

Sequencing error post clustering

Hello!

Since clustering is reducing errors, I would be interested into being able to do seq.error after clustering to see how the error was reduced.

Kind regards.

Hmmm. This isn’t really how the tools were designed since an OTU possibly represents a number of different sequences. You could use get.oturep to get a representative sequence from each OTU. But you could get lucky/unlucky in which sequence you retrieve from each OTU. I’d strongly encourage you to stick with using the output of pre.cluster as input to seq.error

Pat

Alright, thanks! I will stick with it as the SOP.

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