Does anyone have any experience doing chimera detection on full-length (PacBio) 16S sequences? I’ve tried uchime, and found zero chimeras in all of my analyses. Perseus, on the other hand, detects something on the order of 20% of my sequences as chimeric. I haven’t tried the other approaches yet, but I was curious as to what the community is seeing…
Hmmm. We saw them with the data for our PacBio paper. A lot of it has to do with the parameters that are used for training the data. Did you use a count file with your data? Are they evenly distributed or is there (hopefully) a skew?
Pat
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