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The one node-based definition we have is:
> (`has_Child` **some** (`has_Descendant` **value** `Campanula_laciniata` **and** `excludes_lineage_to` **value** `Campanula_pelviformis`))
> **and**
>…
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Please check path to "splits" definition.
In this error, it is not clear what is meant by splits file.
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Dear @emmahodcroft
It is unclear to me where the information information in the following files is from:
* genome/config/clades.tsv
* vp1/config/clades.tsv
I suspect these are downloaded and …
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Abbreviated Definition:
• The abbreviations need to be updated in light of the extensive revisions to Article 9 in PhyloCode Version 5 (e.g., need to replace “V” with “&” symbols for “but not” …
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Is it in scope to include the International Code of Phytosociological Nomenclature and its governed syntaxon names in NOMEN? They can look an awful lot like Linnean names:
https://www.geobotany.org…
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Otherwise, any paraphyletic clade would by implication also be a monophyletic clade, which is false. (See https://en.wikipedia.org/wiki/Paraphyly, for example.)
Yet, the current version of CDAO ass…
hlapp updated
5 years ago
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As we start curating phyloreferences from unpublished sources, we will need to store and process them somewhere without making them public. I'm currently experimenting with the following setup:
- A…
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Re: Iain's comment in issue #23 (as it concerns the faulty promotion of positive ambiguous calls based on our rule engine) -- "The best solution may be to allow the user to provide an input set of pri…
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### Context
The doc page on [Python Development API](https://docs.nextstrain.org/projects/augur/en/stable/api/api.html) converts the docstrings of each class/function.
There has also been some o…
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Currently, this can only be specified in the verbatim clade definition or curation notes. We should implement this as a type of specifier so that they can be specified using the same mechanism that al…