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Actually, I decided to just get the jump on it. Nothing is set in stone, but I thought it would be good to start getting some ideas down. You can take a look at https://airtable.com/appkVoztTe5ILJNT3/…
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Hello!
I am processing ITS data with DADA2 (primers ITS1F-ITS2). I am following recommendations from this paper (https://www.sciencedirect.com/science/article/pii/S1754504818302800?via%3Dihub) and fo…
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Hi
I ran this tool for my amplicon sequencing samples. but having a hard time understanding the results.
in the results predLargeSeg value is not always equal to the prePoint values (copies). H…
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Hey,
thanks for the great simulation tool! We simulated reads using this command:
```bash
conda activate SWAMPy
python simulate_metagenome.py \
--genomes_file ../example/viralref.fasta \…
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Hello,
I hope that you can help me with this :
Can I use nanocaller on my fastq.gz files generated using ONT minion technology ?
Can I use it to detect variants in fungus ?
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I run cojac on wastewater samples which are sequenced using NimagenV3 primer amplicons. It worked well for most variant profile however I encountered this error while using a profile which has co-occu…
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Hi everybody,
I hope you can help me with a problem I am facing since a wile. I am tri=ying to perform CCA on my phyloseq object made from 16S amplicon sequencing.
I have staterd with a basic line…
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Hi,
I am trying to understand the how to properly choose fix the T parameter, which I understand is the min threshold for the O22 value (i.e. observed count of the 2-haplotype).
I am running one…
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*Note:*
This task is too large for one ticket. Break this ticket up in to smaller tickets.
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Clone the current RNA NGS workflow chain (via YML file) for Toni's lab and adjust accordingly for…
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This lesson is meant to be a bit modular, so that it can be adapted to a few different workflows depending on user preference. That said, we do need a default one. Here are my thoughts:
**OTUs vs. …