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The current `Dataset` has type and subtype which is slightly problematic. `Type` is really indicating the row format used in the DwC-A and causes problems since a checklist can have occurrences, and a…
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Dear Dr Callahan,
I hope this message finds you well.
Thanks a lot for all the work and development you have done with this package. It is very useful for my PhD project, which focuses on eDNA…
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Hi,
I have been wrangling some metabarcoding MiSeq data using dada2 and otu clustering to help simplify the search for recombinant sequences. I have managed to run through my make-shift workflow, …
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Hello
I am working with metagenomics data that was isolated from from plant under two different treatment.
I am using squeezemeta for the analysis and I want to further proceed with SQMtools for do…
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Discussion online about how best to accept pooled data. Here is an issue to track comments on pooled data.
The solution for accepting pooled data can be either UI changes, changes to existing drop…
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One thing thet really called my attention was the lack or chloroplast/mitochondrial assembly tools in Galaxy. Recently, Novoplasty was included, but I feel others could be added.
I would recommend:…
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Hi Benjamin,
Thanks for all your work on dada2 and this page.
I’ve come across something in a recent library that I havent been able to figure out from a few days exploring possibilities and trawl…
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While this benchmark isn't currently attained by similar software (e.g., https://github.com/zdk123/SpiecEasi/issues/90), are you planning on publishing NetCoMi on CRAN/Bioconductor? Conda would also b…
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I am working with Nanopore 16S metabarcoding data and did not produce FASTAs of the 16S sequences when getting the relative abundances, the pipeline went from read to an OTU table. There are about 45 …
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Hi, I am looking at some data from the 2 x 150 bp V4 region, and when I look at the quality plot, we see a drop in the middle of the read for both forward and reverse. Furthermore, we see that many of…