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Remove unrequired method
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hdbscan/plots.py

Lines changed: 0 additions & 66 deletions
Original file line numberDiff line numberDiff line change
@@ -210,72 +210,6 @@ def get_plot_data(self,
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'cluster_bounds': cluster_bounds
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}
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def get_simple_plot_data(self, leaf_separation=1, log_size=False,
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max_rectangle_per_icicle=20):
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"""Generates simplified data for use in plotting the 'icicle plot' or
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dendrogram plot of the condensed tree generated by HDBSCAN.
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Parameters
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----------
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leaf_separation : float, optional
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How far apart to space the final leaves of the
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dendrogram. (default 1)
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log_size : boolean, optional
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Use log scale for the 'size' of clusters (i.e. number of
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points in the cluster at a given lambda value).
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(default False)
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max_rectangles_per_icicle : int, optional
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To simplify the plot this method will only emit
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``max_rectangles_per_icicle`` bars per branch of the dendrogram.
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This ensures that we don't suffer from massive overplotting in
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cases with a lot of data points.
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Returns
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-------
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plot_data : dict
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Data associated to bars in a bar plot:
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`bar_centers` x coordinate centers for bars
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`bar_tops` heights of bars in lambda scale
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`bar_bottoms` y coordinate of bottoms of bars
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`bar_widths` widths of the bars (in x coord scale)
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`bar_bounds` a 4-tuple of [left, right, bottom, top]
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giving the bounds on a full set of
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cluster bars
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Data associates with cluster splits:
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`line_xs` x coordinates for horiontal dendrogram lines
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`line_ys` y coordinates for horiontal dendrogram lines
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"""
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leaves = _get_leaves(self._raw_tree)
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last_leaf = self._raw_tree['parent'].max()
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root = self._raw_tree['parent'].min()
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# We want to get the x and y coordinates for the start of each cluster
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# Initialize the leaves, since we know where they go, the iterate
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# through everything from the leaves back, setting coords as we go
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cluster_x_coords = dict(zip(leaves, [leaf_separation * x
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for x in range(len(leaves))]))
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cluster_y_coords = {root: 0.0}
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# We want to get the x and y coordinates for the start of each cluster
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# Initialize the leaves, since we know where they go, the iterate
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# through everything from the leaves back, setting coords as we go
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cluster_x_coords = dict(zip(leaves, [leaf_separation * x
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for x in range(len(leaves))]))
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cluster_y_coords = {root: 0.0}
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for cluster in range(last_leaf, root - 1, -1):
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split = self._raw_tree[['child', 'lambda_val']]
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split = split[(self._raw_tree['parent'] == cluster) &
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(self._raw_tree['child_size'] > 1)]
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if len(split['child']) > 1:
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left_child, right_child = split['child']
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cluster_x_coords[cluster] = np.mean([cluster_x_coords[left_child],
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cluster_x_coords[right_child]])
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cluster_y_coords[left_child] = split['lambda_val'][0]
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cluster_y_coords[right_child] = split['lambda_val'][1]
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def _select_clusters(self):
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if self.cluster_selection_method == 'eom':
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stability = compute_stability(self._raw_tree)

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