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I am interesting in post-DADA2 clustering of ASVs for more general animal biodiversity questions at the species or genus-level using, in this case, the CO1 marker. While the ASVs are very interesting …
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Hi,
I'm starting to work on a DNA metabarcoding project and I was following the amazing tutorial from Devon O'rourke to build my COI reference library from BOLD (https://forum.qiime2.org/t/building…
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The slowest step in the metabarcoding pipeline is the taxonomic assignment, and reducing the number of OTUs or ESVs could reduce the workload of this step. Therefore, a new final step could be added t…
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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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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 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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- submit sequences to NCBI
- submit occurrences to OBIS
Get insight from Diana's presentation.