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Great idea as I always have troubles to find a standardized method for defining the trimming parameters in DADA2. However, when I try running figaro.py with my data (16S V3/V4, Illumina MiSeq demultip…
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### Description of feature
I have a LULU subworkflow that I can add to Ampliseq. The subworkflow uses blastn to create the matchlist for LULU, then uses LULU for post-clustering curation. The input f…
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I'm using DADA2 as part of a eDNA metabarcoding data pipeline, and I was hoping to automate choosing TruncLen (instead of visually choosing based on plotQualityProfile()). As you've said in multiple …
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Bactopia seemed to assemble and complete fine on my pair-end samples, but I'm having a little difficulty navigating the output files.
Until recently I've mainly wored worked with metabarcoding and me…
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Hi @benjjneb,
I am performing DNA metabarcoding of marine communities using COI as marker gene (313 bp amplicon). For taxonomy assignment, I am using a sequence reference database compiled by Arran…
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**change title of case study 'eDNA barcoding'**
The title of the case study 'eDNA barcoding' should be 'eDNA metabarcoding' since the case study refers to complex, multispecies samples proces…
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Materials ingested into TeSS from Zenodo lose their formatting. The descriptions are provided through the Zenodo API, formatted with HTML tags.
TeSS needs to convert this to markdown for it to dis…
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Hello there,
would it be possible to add a low memory mode for the --derep_fulllength command? Many metabarcoding pipelines need a global dereplication before clustering or denoising. For a large f…
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### Description of feature
Hi (again, sorry).
We would like to test ampliseq with CO1 data as an automated generic metabarcoding workflow, however no CO1 taxonomic databases are currently implemen…