├── test.py # main script
├── raw_input # input directory
├── segment_output # segmentation output directory
├── threshold_output # output directory of processed images
├── graph_output # charts
├── \*.bsh # BeanShell scripts
├── Fiji.app # ImageJ Content (Available from https://imagej.net/software/fiji/downloads, a lower version eg. 3.24 is required)
│ ├── \*.model # Trained segmentation model to be loaded
│ ├── ...
├── .gitignore
└── README.md