cassiopeia.pl.labels_from_coordinates#
- cassiopeia.pl.labels_from_coordinates(tree, attribute_key='spatial', shape=(1000, 1000))[source]#
Create a (synthetic) labels Numpy array for use with 3D plotting.
Cells are represented as circles with a radius scaled by the square root of the number of cells. The center of each circle is the cell’s spatial coordinates.
- Parameters:
- tree
CassiopeiaTree CassiopieaTree to generate labels for
- attribute_key
str(default:'spatial') Attribute name in the cell_meta of the tree containing coordinates. All columns of the form {attribute_key}_i where i is an integer 0… will be used.
- shape
tuple(default:(1000, 1000)) Shape of the array to generate. This should be a tuple of two integers, representing the height and width of the array.
- tree
- Return type:
- Returns:
A synthetic labels array that can be used for 3D plotting.
- Raises:
PlottingError if there are not exactly two spatial coordinates. –