Square Dendrogram Style

We use a tree saved in json format from a likelihood function analysis of a non-stationary model. The tree was derived such that the the branch lengths are now “ENS”.

Note

I change the scale bar placement. Valid values are "top left", "top right", "bottom left" (default), or "bottom right".

import cogent3

reader = cogent3.get_app("load_json")

ens_tree = reader("data/GN-tree.json")
fig = ens_tree.get_figure(width=600, height=600)
fig.scale_bar = "top right"
fig.show()

Colouring a set of edges

fig.style_edges(
    "AfricanEl",
    tip2="Manatee",
    legendgroup="Afrotheria",
    line=dict(color="magenta"),
)
fig.show()

With Contemporaneous Tips

fig.contemporaneous = True
fig.show()