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Define rules for a stable taxonID. Understanding when a taxon changes sufficiently to warrant an identifier change
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Hello!
I am playing around with `gappa analyze edgepca`, and I wanted to work programatically with which edges are the ones contributing the most for each component. I want to have an overview of t…
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### **Description** All credit goes to @oobb45729 for being the first to discover this branch and for proposing its parent branch. The only reason I created (then closed) this issue was because I was…
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Phylogenetic placement, using [Pplacer](https://matsen.fhcrc.org/pplacer/), is a better way of getting a phylogenetic tree of short amplicons than making a phylogeny from an alignment of the ASVs on t…
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We want to
- update the captions to be more informative
- Standardise with other figures on colour scheme (use matplotlib default colour wheel, probably)
- Standardise with other figures on font an…
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Dear Matthias Blanke,
Hello, I've been using App-Spam to phylogenetically place fungal ITS sequences (ITS1, ITS2, and full ITS are mixed in this query) against the reference alignment and tree gene…
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貼吧活動:(請查閱 [SARS-CoV-2 Timeline by 2020.02.21](https://github.com/agorahub/_meta/blob/agoran/theagora/sari/Memorandum_2020-02-21_SARS-CoV-2-Timeline_Nathan.pdf?raw=true), by Nathan :cloud: )
- Colla…
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Hello,
I have 40 bacterial MAGs that I used to create a tree with "gtdbtk classify_wf" option. Here is the command I used.
`gtdbtk classify_wf --genome_dir selected_genomes --extension fa --ou…
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```[tasklist]
### Multiple EG.5.1\* Lineages with S:L455F or S:L455S
- [x] [Branch 1](#branch_1): Designated as HK.8 via [cov-lineages/pango-designation@`9527e15`](https://github.com/cov-lineages/…