neurots.utils¶
NeuroTS utils used by multiple tools.
Functions
Convert legacy neurite type names, basal -> basal_dendrite and apical -> apical_dendrite. |
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Format values of an object recursively. |
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Print a deprecation warning for old neurite_type key. |
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Find section and segment that matches the point (also in morph_tool.spatial). |
Exceptions
Raises NeuroTS error. |
- neurots.utils.convert_from_legacy_neurite_type(data)¶
Convert legacy neurite type names, basal -> basal_dendrite and apical -> apical_dendrite.
- neurots.utils.format_values(obj, decimals=None)¶
Format values of an object recursively.
- neurots.utils.neurite_type_warning(key)¶
Print a deprecation warning for old neurite_type key.
- neurots.utils.point_to_section_segment(neuron, point, rtol=1e-05, atol=1e-08)¶
Find section and segment that matches the point (also in morph_tool.spatial).
Only the first point found with the exact same coordinates as the point argument is considered
- Parameters:
neuron (morphio.Morphology) – neuron object
point (point) – value of the point to find in the h5 file
rtol (floats) – precision of np.isclose
atol (floats) – precision of np.isclose
- Returns:
(NeuroM/MorphIO section ID, point ID) of the point the matches the input coordinates. Since NeuroM v2, section ids of NeuroM and MorphIO are the same excluding soma.
- Return type:
Tuple