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                                            Jess Grembi

Consequences of using dada2 on NovaSeq data

@hhollandmoritz Thanks for posting these plots, we are seeing similar results with recent NovaSeq data. I'd just like to add that our sequencing center/instrument binned the quality scores differently than...

Consequences of using dada2 on NovaSeq data

@hhollandmoritz Did you ever determine an optimal number of bases to sample in the `learnErrors` step for your NovaSeq run?

Consequences of using dada2 on NovaSeq data

So, I ran the `learnErrors` command for a range of `nbases`, mostly because I was nervous about only using a single sample to learn error rates. **`nbases = 10^8`** #118265865...

Consequences of using dada2 on NovaSeq data

@benjjneb Your explanation above for how the loess model works makes sense. But I'm not sure if it explains why the Q37 point disappears from some of my plots (G2C...