morphoclass.transforms.edge_features.extract_edge_index module

Implementation of the edge index (adjacency matrix) extractor.

class morphoclass.transforms.edge_features.extract_edge_index.ExtractEdgeIndex(make_undirected=False)

Bases: object

Extract the adjacency matrix from apical trees.

The data should contain the field tmd_neuron, see the ExtractTMDNeuron class.

For each apical tree in the neuron the the adjacency matrix is extracted and saved as edge_index field in the Data objects. The edge_index is a sparse representation of the adjacency matrix.

Parameters

make_undirected (bool) – Symmetrise the adjacency matrix