-
Hi
Firstly I have found the documentation and usage of mmseqs2 for taxonomic assignment to be extremely good and easy to follow!
However, just a quick point that some of the ncbi taxids given do…
-
Added functionality where users can analyse zymo standard mocks for taxonomic assignment accuracy(?)
Ref: https://github.com/OxfordCMS/OCMS_zymoBIOMICS
Development branch: https://github.com/microsu…
-
Hello!
I am processing ITS data with DADA2 (primers ITS1F-ITS2). I am following recommendations from this paper (https://www.sciencedirect.com/science/article/pii/S1754504818302800?via%3Dihub) and fo…
-
According to recent emails with the MIDORI developers, it seems wise to update PEMA to where the midori db is now published. Hopefully this will solve a couple of issues that we have had (1) the gap…
-
We are planning to benchmark a set of metabarcoding tools and I thought to use OPAL. When investigating the tool, I thought one could use it for metabarcoding assessment just as well as long as one ca…
-
Dear authors,
First of all, thank you for creating SqueezeMeta.
In your opinion, what would be the best ways/options to speed up SqueezeMeta execution? I tested it on two paired fastq.gz files o…
-
I understand that diamond output read number may be considerably less than diamond input read number, as the output excludes reads for which no alignment is found i.e. excludes "no hit" reads.
How …
-
Noting that the more data we add some of these plots will be changing (PCoA) and that once the data is re-picked with more recent versions of the GreenGenes database some of the taxonomic assignments …
-
Hey,
Will you provide the ASV sequence which may provide more info at strain level?
Thanks!
-
A list of tool that can be considered if GBIF considers to produce own reference databases.
[RESCRIPt](https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1009581) **Reproducible…