Add a button that reroots the phylogenetic tree on the selected node in the tree viewer in the visualizer.
Added Features
AdditionalModified visualizer section
In the phylogenetic tree viewer, add a button to the top toolbar that will reroot the phylogenetic tree on the selected node. Might have to disable it and/or add an "undo" button along side it to prevent wild trees from being generated.
More Info
Context
RAxML-NG doesn't root trees by default, and sometimes even when an outgroup is added, it does not place the outgroup as a top-level clade. For JEV, this outgroup is very important to genotyping the virus, so we need an easy way to provide it visually.
Alternatives
We could try to make a parameter or a genotype sheet label for the outgroup to have RAxML-NG perform the outgrouping for us, but I think having the ability to reroot the tree in the visualizer would be helpful anyway.
Summary
Add a button that reroots the phylogenetic tree on the selected node in the tree viewer in the visualizer.
Added Features
AdditionalModified visualizer sectionIn the phylogenetic tree viewer, add a button to the top toolbar that will reroot the phylogenetic tree on the selected node. Might have to disable it and/or add an "undo" button along side it to prevent wild trees from being generated.
More Info
Context
RAxML-NG doesn't root trees by default, and sometimes even when an outgroup is added, it does not place the outgroup as a top-level clade. For JEV, this outgroup is very important to genotyping the virus, so we need an easy way to provide it visually.
Alternatives
We could try to make a parameter or a genotype sheet label for the outgroup to have RAxML-NG perform the outgrouping for us, but I think having the ability to reroot the tree in the visualizer would be helpful anyway.
Possible implementation
Phylotree.js does provide a reroot functionality (see https://github.com/veg/phylotree.js/blob/master/API.md#rerootnode-if--phylotree). We would just need to provide a button to harness that function.