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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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Dear all,
I'm working on a metagenomics / metabarcoding project of soil samples. It involves Illumina MiSeq paired end sequences with 300 bp and 16S primers. I'm following DADA2 pipeline, however, …
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Hi Dominik,
having the issue currently that no xlsx file is being written for my results.
Using boldigger2 v1.0.6 with python 3.12.1.
I have a fasta file with 1,773 COI sequences. After rough…
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This based on the discussion at https://forum.qiime2.org/t/how-to-import-a-biom-file-containing-sequences/29452/7 where filing an issue was suggested, along side background reading including https://f…
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Hello,
I have recently started analysing metabarcoding data with QIIME2 and the pipelines I follow use this extension.
Unfortunately after installing the latest versions of both 'types-genomics' a…
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Hi Ben,
I have been using DADA2 on illumina sequenced COI data for the last year and it has become the backbone of my bioinformatics pipeline. We now have a PhD student in our group developing meta…
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- submit sequences to NCBI
- submit occurrences to OBIS
Get insight from Diana's presentation.
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I'm working with metabarcoding of fungi associated with plant tissues. After processing the data through the DADA2 ITS Pipeline Workflow (1.8) I realized through the taxonomy table that there is a lar…
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**Submitting author:** @adrientaudiere (Adrien Taudiere)
**Repository:** https://github.com/adrientaudiere/MiscMetabar
**Branch with paper.md** (empty if default branch):
**Version:** v0.5
**Editor:*…
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If we want the pipeline to run on CEG, we need to iron out how to get a version of R on there that can run the Dada2QAQC script. if I remember correctly, it can't install the seqinr package bc the ve…