Estimating error rate across my 16S MiSeq amplicon sequencing
I have a large metagenomic 16S amplicon sequencing dataset and am binning them into ASVs based off a SNP threshold. I want to ensure my binned ASVs are not an artefact of the sequencing error rate.
However I am at a loss as to how I would go about this given there are many parameters that given the error rate for any given run as extensively detailed here
Would anyone have advice on how I can go about determining per amplicon I can expect x number of errors?
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andres.firrincieli
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robert.murphy •
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robert.murphy •
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How did you get your ASVs? Software like DADA2 or deblur, which perform and ASV-level binning, already try to corrects both PCR and sequencing errors.
Did you sequence, along with your samples, a mock community?