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Hello Frederick,
Thanks again for this package and your hard work on improving it continuously. It has been essential for my PhD!
I saw that you have just submitted an update, so looking forward …
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**Submitting author:** @ParkvilleData (Babak Shaban)
**Repository:** https://github.com/ParkvilleData/MetaGenePipe/
**Branch with paper.md** (empty if default branch):
**Version:** 1.1.5
**Editor:** …
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Hello I used kraken-biom to perfrom an abundance calculation from kraken2 taxonomic classification output.
My question is given a classification made from shotgun metagenomic reads. kraken2 can ass…
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Hi,
I was wondering if you have already a script to build an OTU table from a kaiju output ??
In my case i have used Kaiju to assign taxonomy to different bins.
Thanks,
david
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Hi, I was trying to use `woltka classify` with stratification. However, I found that there is a difference between `classify` to a certain level (say 'ko') directly and `classify` at uniref level firs…
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Hello,
I am using conda to install AMR++ pipeline but the demo crashed while parsing nextflow.config with the following error:
(AMR++) shreya@DESKTOP-D417TM9:~/AMRplusplus$ nextflow run main_A…
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Hey @AlessioMilanese
I wanted to ask, I am interested in quantifying gene-relative abundances from metagenomes using MOTU. For this, I have the RPKM counts (corrected for gene-length and read len…
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This project is quite exciting, but like you mentioned in your pre-print, there is very little public training data to help optimize for this use-case.
I'd like to point the authors to a substanti…
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I am running the MEGAN-RMA-summary workflow on an HPC cluster that doesn't have access to the internet. I ran snakemake first to install the dependencies with conda, as follows:
snakemake --snakefil…
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I'm trying to scan my dataset for RNA viruses but I'm getting an error.
The command I ran was the following:
```
virsorter run -w ${OUT_DIR} -i ${FASTA} --min-length 1500 -j ${N_JOBS} --include…