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Thank you for developing this awesome tool.
I was wondering if singlem (specifically the microbial fraction module) would work adequately on Nanopore/PacBio long-read datasets (metagenomic reads an…
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A node that allows the transformation of microbial data by used defined functions, e.g. to convert units (cfu/ml into cfu/g) or to transform measurements taken as optical density by means of a calibra…
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SE was removed from `vegan::fisher.alpha` in CRAN release 2.0-10 of December, 2013 (and for a reason). However, you still expect it in `phyloseq::estimate_richness`. This does not cause problems in **…
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I followed the new README file to build the database but the last command give me an error:
krakenuniq-download --db DBDIR --dust microbial-nt
Unknown database microbial-nt.
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@papanikos
I changed the strategy of running the programs of transeq and hmmsearch so each sample is run separately after length filtering step. Previously, samples were concatenated together before…
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@mslarae13 and I met with James today to review his data in the portal.
1. Sample names that are longer and contain a "T" such as: _Groundwater microbial communities from the Columbia River, Washin…
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Hi! I ran into the error below and was wondering if someone could help me figure it out. Thank you!
(base) [sysadmin@phlabbiocovid Abam-SCHH-2021_HF-2021-162]$ python /home/sysadmin/snvphyl-galaxy-…
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**Related To**
- [ ] Bactopia
- [X] Bactopia Tools
**Is this something you would like to see added?**
[MiGA](http://microbial-genomes.org/) has a lot of useful reports, especially [MyTaxa Scan…
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Ghenu et al (2022) evaluated methods of fitting microbial growth curves.
Based on a conversation with the lead author, epigrowthfit could probably contribute a lot here if we:
* make it possible…