baltic
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evogytis
baltic - backronymed adaptable lightweight tree import code for molecular phylogeny manipulation, analysis and visualisation. Development is back on the evogytis/baltic branch (i.e. here).
The tree regex has a hard coded ".lower" (line 1274) so it makes it difficult to customise the treestring_regex for case sensitive stuff. Eg dendropy will write a nexus file...
If the MRCA of a set of tips given to the commonAncestor function is the root of the tree, then Baltic will sometimes return the node that is the parent...
This is especially useful for large polytomies as seen with SARS-CoV-2 trees. Retaining original leaf nodes positions is useful as an option.
Hi, I'm trying to find a way to make baltic treat singletons along polytomies as tree objects (number of leaves = 1), so that I can show those in a...
When using loadJSON from an auspice tree, Unicode errors are often raised. Could different encodings be tried before raising an error in future versions?
If I understand correctly, currently there's no way of adding text to a circular tree. Am I missing something or should I write my own implementation of addCircularText() ?
Hello! I believe you shared with me some code for exporting a baltic tree as a Nextstrain JSON. I expect it would be widely useful at this point. `exportJSON` perhaps?
Explore using github actions for this, once the basic test suite is ready
When a branch has multiple trait values and some of them are Booleans calling `.toString()` will cause concatenation artefacts in nexus comment format.
