Pin Colors Dimensionality Reduction Plot #33
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Need changes from header of scatterplot
…of header keyword argument
Ahmad8864
requested changes
Apr 22, 2025
src/spac/visualization.py
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| raise ValueError("x and y must have the same length.") | ||
| if labels is not None and len(labels) != len(x): | ||
| raise ValueError("Labels length should match x and y length.") | ||
| if color_map is not None: |
Collaborator
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Checking if color_map is None isn't needed, isinstance will correctly check if color_map is dict, even if color_map is None
src/spac/visualization.py
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| if color_map is not None: | ||
| if not isinstance(color_map, dict): | ||
| raise ValueError("`color_map` must be a dict mapping label→color.") | ||
| color_dict = color_map |
Collaborator
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This reassignment isn't needed, since you're just assigning it to cluster_to_color again down below. You can just set cluster_to_color = color_map online 146
src/spac/visualization.py
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| # Use the number of unique clusters to set the colormap length | ||
| cmap = ListedColormap(colors[:len(unique_clusters)]) | ||
| if color_map is not None: | ||
| cluster_to_color = color_dict |
Collaborator
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cluster_to_color = color_map
src/spac/visualization.py
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| cmap2 = plt.get_cmap('tab20b') | ||
| cmap3 = plt.get_cmap('tab20c') | ||
| colors = cmap1.colors + cmap2.colors + cmap3.colors | ||
| cluster_to_color = { |
Collaborator
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Removing the whole if statement and just doing this might be more concise:
cmap1 = plt.get_cmap('tab20')
cmap2 = plt.get_cmap('tab20b')
cmap3 = plt.get_cmap('tab20c')
colors = cmap1.colors + cmap2.colors + cmap3.colors
cluster_to_color = color_map if color_map is not None else {
str(cluster): colors[i % len(colors)]
for i, cluster in enumerate(unique_clusters)
}
Ahmad8864
approved these changes
Apr 29, 2025
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Summary:
Updated dimensionality reduction plot to take in pin_colors keyword argument which allows users to pass in a string of a key located in ann-data uns. It then grabs the dictionary/color mapping and passes into 2dscatter function.
Changes: