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.. jupyter-execute::
:hide-code:
import set_working_directory
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"``.
.. jupyter-execute::
from cogent3.app import io
reader = io.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()
.. jupyter-execute::
:hide-code:
outpath = set_working_directory.get_thumbnail_dir() / "plot_tree-square.png"
fig.write(outpath)
Colouring a set of edges
------------------------
.. jupyter-execute::
fig.style_edges(
"AfricanEl",
tip2="Manatee",
legendgroup="Afrotheria",
line=dict(color="magenta"),
)
fig.show()
With Contemporaneous Tips
-------------------------
.. jupyter-execute::
fig.contemporaneous = True
fig.show()
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