neuron_morphology.transforms.upright_angle.compute_angle

Module Contents

Functions

get_upright_angle(gradient: xr.DataArray, point: Optional[List[float]] = None, n_win: int = 2) → float	Calculate the upright angle at a position, e.g. soma, given a vector field
calculate_transform(gradient_field: xr.DataArray, morph: Morphology, node: Optional[List[float]] = None)
run_upright_angle(gradient_path: str, swc_path: str, node: Optional[List[float]] = None)
main()

neuron_morphology.transforms.upright_angle.compute_angle.get_upright_angle(gradient: xr.DataArray, point: Optional[List[float]] = None, n_win: int = 2) → float

Calculate the upright angle at a position, e.g. soma, given a vector field

Parameters:

gradient: xarray of the the vector field

point: list [x,y,z] coordinates

n_win: number of grid points to define the interpolation window

Returns:

angle

neuron_morphology.transforms.upright_angle.compute_angle.calculate_transform(gradient_field: xr.DataArray, morph: Morphology, node: Optional[List[float]] = None)

neuron_morphology.transforms.upright_angle.compute_angle.run_upright_angle(gradient_path: str, swc_path: str, node: Optional[List[float]] = None)

neuron_morphology.transforms.upright_angle.compute_angle.main()