wprazuch / bronchovascular-bundle-modelling

Pipeline to create a model of bronchovascular bundle

Bronchovascular Bundle Modelling

1. Introduction

This repository contains the source code for the pipeline to generate a model of a bronchovascular bundle from the CT imaging.

2. Installation

For simple installation and runtime, we use poetry to orchestrate installation of most of the dependencies. To run the pipeline, we recommend using Python version 3.8 or higher. Then, navigate to the root directory of the repository and run: ./initial_setup.sh The repository should initialize the working environment to run the scripts. As a initial step before running scripts, activate the virtual environment by running:

For Linus/MacOS: source .venv/bin/activate

For Windows users: .venv/Scripts/activate

3. Usage

For generating a bronchovascular model object, run: