-
Hi,
I'm using `sortmerna` to "clean" some RNA-seq data that. I'm wondering about the "new" databases, i.e. those starting `smr_*`. The documentation is for `sortmerna` v 4.3.3 is not clear on how t…
-
Hi there!
I am very happy with dada2! I do have a suggestion for improvement of the documentation. I think it would be very helpful to explain a bit more about the formatting of custom databases. E…
-
Hi Ben,
I am wondering if i can use SingleM to builds OTU tables from functional genes, for example, targeting dsrA with a dsrA package from graftM.
-
Create a taxonomic database from the existent species table. Once established, a post-processing workflow will be created to recognize when new taxa have been added to the synthesized species table an…
-
Hello,
Along the same lines of issue #94, I was hoping that the [UNITE ITS database](https://unite.ut.ee/repository.php) could be included as a special database in Kraken2. The FASTA headers contain …
-
Dear Benjamin
Thank you for developing this user-friendly R package for the challenge with contaminant filtration.
I have some questions about decontam below. I hope you have time for answering…
-
Using the species match, we get an `https://api.gbif.org/v1/species/match2?name=Synechococcus_C%20sp014279835` on the name `Synechococcus_C sp014279835`.
An `https://www.gbif.org/occurrence/3356905…
-
We need to migrate all the assembly and annotation data generated as part of Serratus to our data-lake in a structured way so as to allow for programmatic access. This is a proposed folder hierarchy t…
-
Problem Description:
===============
I'm running the following command:.
```shell
kaiju2table -o ./narmena_results.tsv \
-t nodes.dmp \
-n names.dmp \
…
-
Dear friends:
I am getting stuck at a problem while using phyloseq to plot an ordination plot, here are the codes and errors below:
physeq ord = ordinate(physeq, formula=~Treatments, "PCoA", "unifr…