Overview

This code accompanies the paper "TOPOLOGICAL SHOLL DESCRIPTORS FOR NEURONAL CLUSTERING AND CLASSIFICATION" Data is available https://doi.org/10.5281/zenodo.6118983

Requierments

1. MATLAB release R2020a
2. Java 1.8.0_202-b08 with Oracle Corporation Java HotSpot(TM) 64-Bit Server VM mixed mode

Installation

1. Extract the ZIP file or clone the git repository in a directory of your choice on your local machine.

2. Place your swc files in the morphology/data folder

    ├── morphology/data
    │   ├── class1 (folder with swc files for class1)
    │   ├── class2 
        .
        .
    │   └── classn
   

   To run the swc files included in the paper download the data folder from https://doi.org/10.5281/zenodo.6118983 navigate to data/set(n)/swc_files and copy all the folders into the morphology/data folder

3. Run the main.m script morphology/main.m file from the editor tab or by excuting run('main') from your command window. The morphology/config.m file should add and set all the necessary paths and the script should start executing.

4. To manually add the morphology/ folder to your path in MATLAB :

   • use the "Set Path" dialog in MATLAB, or
   • by running the addpath(pwd) function from your command window or startup script.

5- All the output matrices and the images will be generated in morphology/save