astrodendro.plot.DendrogramPlotter¶

class astrodendro.plot.DendrogramPlotter(dendrogram)¶

A class to plot a dendrogram object.

Methods

`sort`([sort_key, reverse])	Sort the position of the leaves for plotting.
`set_custom_positions`(custom_position)	Manually set the positon on the structures for plotting.
`plot_tree`(ax[, structure, subtree, autoscale])	Plot the dendrogram tree or a substructure.
`plot_contour`(ax[, structure, subtree, slice])	Plot a contour outlining all pixels in the dendrogram, or a specific.
`get_lines`([structures, subtree])	Get a collection of lines to draw the dendrogram.

Methods (detail)

sort(sort_key=None, reverse=False)¶

Sort the position of the leaves for plotting.

Parameters:

sort_key : function, optional

This should be a function that takes a ~astrodendro.structure.Structure and returns a scalar that is then used to sort the leaves. If not specified, the leaves are sorted according to their peak value.

reverse : bool, optional

Whether to reverse the sorting

set_custom_positions(custom_position)¶

Manually set the positon on the structures for plotting.

Parameters:

custom_position : function

This should be a function that takes a ~astrodendro.structure.Structure`returns the position of the leaves to use for plotting. If the dataset has more than one dimension, using this may cause lines to cross. If this is used, then ``sort_key` and reverse are ignored.

plot_tree(ax, structure=None, subtree=True, autoscale=True, **kwargs)¶

Plot the dendrogram tree or a substructure.

Parameters:

ax : Axes instance

The Axes inside which to plot the dendrogram

structure : int or ~astrodendro.structure.Structure, optional

If specified, only plot this structure. This can be either the structure object itself, or the ID (idx) of the structure.

subtree : bool, optional

If a structure is specified, by default the whole subtree will be plotted, but this can be disabled with this option.

autoscale : bool, optional

Whether to automatically adapt the window limits to the tree

Notes

Any additional keyword arguments are passed to ~matplotlib.collections.LineCollection and can be used to control the appearance of the plot.

plot_contour(ax, structure=None, subtree=True, slice=None, **kwargs)¶

Plot a contour outlining all pixels in the dendrogram, or a specific. structure.

Parameters:

ax : Axes instance

The Axes inside which to plot the dendrogram

structure : int or ~astrodendro.structure.Structure, optional

If specified, only plot this structure. This can be either the structure object itself, or the ID (idx) of the structure.

subtree : bool, optional

If a structure is specified, by default the whole subtree will be plotted, but this can be disabled with this option.

slice : int, optional

If dealing with a 3-d cube, the slice at which to plot the contour. If not set, the slice containing the peak of the structure will be shown

Notes

Any additional keyword arguments are passed to ~matplotlib.axes.Axes.contour and can be used to control the appearance of the plot.

get_lines(structures=None, subtree=True, **kwargs)¶

Get a collection of lines to draw the dendrogram.

Parameters:

structures : Structure

The structures to plot. If not set, the whole tree will be plotted.

subtree : bool, optional

If a structure is specified, by default the whole subtree will be retrieved, but this can be disabled with this option.

Returns:

lines : StructureCollection

The lines (sub-class of LineCollection) which can be directly used in Matplotlib

Notes

Any additional keyword arguments are passed to the ~matplotlib.collections.LineCollection class.