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have a look at this for more on ASVs: https://benjjneb.github.io/dada2/tutorial.html
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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…
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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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I'm interested in trying out SneakySnake, but as far as I can tell, aligning sequences with unequal lengths is not directly supported in the main `SneakySnake()` function. Is this an inherent limita…
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**Describe the bug**
Minimise the number of experiment checklists, to reduce confusion e.g. why WGS and genomic?
**To Reproduce**
**Expected behavior**
**Screenshots**
**Desktop (please…
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**Topic name:** metabarcoding
**Short description:** Metabarcoding is the barcoding of DNA or RNA to identify multiple taxa from the same sample. Typically high throughput sequencing is performed …
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Hello,
I am relatively new to this package (and coding in general), I've been using AMPtk to analyze my files for a project I'm currently working on. However, when I reach the AMPtk cluster step, m…
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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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Hi ,
This is my first time posting a question here so I hope I am doing this right. I have intensively looked for the answer on diverse R forums and could not find help so I am pretty sure this que…
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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…