Chris Fields
Chris Fields
> Visually the fit with the updated version looks much better. Without a deep understanding, my surface read is that the updated code might be more effectively working across Q...
Small update: based on feedback from our PacBio BI rep it sounds like SMRTLink can be configured to generate full quality scores for Revio, though it sounds like these top...
@benjjneb to add to this, we redid a Kinnex run but set it to generate the full quality range. Despite PacBio's indication these would top out at 40 they do...
As a final addition, if you use the full quality scores the original PacBio error function in DADA2 it seems to work well: Note that the qualities go all the...
@jonalim agreed, and I think this is where having a decent mock data set would be useful to assess this. There are ones available from PacBio which we have tested...
I am seeing the same issue (though via `learnErrors`, which is running `derepFastq` internally): ``` > err filts filts
> ...But we'd like something that can denoise if possible And TIL that `vsearch` does implement the UNOISE3 algorithm, which I may try.
@wlwhalley Have you cross-checked the data to make sure all samples IDs match across all data? I found this occurs when I generate an initial phyloseq object (w/ counts, ranks,...
Just a note that we'd love seeing M1 support for a number of applications, and would be happy to assist where possible in testing. One in particular is [anvi'o](https://anvio.org), which...
Thanks @timo ! Will do