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full_morpho

Description

This directory contains the source codes and exemplar data for full morphology analyses.

Usage

Estimation inter-neuronal and inter-regional diversity

  • Calculates the pairwise correlations between all neurons based on the their L-Measure features (../data/features.txt) using the scripts ./analyses/sdmatrix.py, ./analyses/sdfeatures.py. Additionally, the inter-regional diversity will be estimated by the average correlation among neuron pairs from the corresponding regions.

Visualization of exemplar morphologies [analyses/viz_swc_in_vtk_ccfbrain.py]

Use

python viz_swc_in_vtk_ccfbrain.py --v root.vtk --folder '../data/axon_sort'

Whole-brain spatial-tuned clustering of full morphologies (Figure 4)

One can easily conduct the analyses following the ipynb file (Fig4_full_morpho_final.ipynb), and the related exemplar input files, intermediate files, and output files can be found in ../data/Fig4 folder of this project.