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Hello !!
Is there any way to generate a phylogenetic tree from Bracken output. I aim to estimate phylogenetic diversity (exp: Faith PD)?
Regards
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### Author(s) of proposal
Zheng-Yu Zuo
### Name of taxon
Dryopteridoideae, Ctenitoideae, Elaphoglossoideae, Lastreopsidoideae, Pleocnemioideae, Polybotryoideae, Polystichopsidoideae
### Rank of ta…
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Hi again!
I have ContScount crunching an initial 50 public genomes from different animals and single-cell eukaryotes - using NCBI nr database - and have gotten back results on 7 of them. Here are t…
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These issues came up in the context of #1027. These are also related to #1040.
- [ ] port original UniFrac web docs
~~- [ ] explore alternative weighting schemes (see @rob-knight's comment [here](h…
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A PSV/PSE/PSC/etc version that can handle really big phylogenies. In the past I have tried to calculate PSV on a phylogeny with several hundred thousand tips, but R will give a 'cannot allocate vector…
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**Is your feature request related to a problem? Please describe.**
It would be great if phylogenetic beta diversity was accessible via a script so it could be called from the command line.
**Descr…
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Hi,
I have some questions when using these scripts.
1. What are the functions of bootstrap in snpgenie_within_group.pl and SNPGenie_sliding_windows.R respectively, why do they need to be performed…
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### Describe the possible issue
NCBI GenBank records [EF631122](https://www.ncbi.nlm.nih.gov/nuccore/EF631122) and [EF631123](https://www.ncbi.nlm.nih.gov/nuccore/EF631123) (corresponding to PP_000…
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**Bug Description**
When working with a Python method the docstring indicates that the return type is some subclass of the `Artifact` class, however the return type seems to always be of type `Result…
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### Context
The glycoprotein complex (GPC) is the only surface protein of the Lassa virus (LASV) and plays a crucial role in mediating entry into host cells. It is also a primary target for neutr…