pumpia-uniform-phantom 0.0.1

Uniform MRI phantom analysis based using the PumpIA framework.

Introduction

This repository contains code to analyse a uniform phantom using the PumpIA framework. It uses the subtraction SNR method and therefore expects a repeat image, however the uniformity module will run with a single image.

It is currently not validated and is provided as is, see the license for more information.

The collection contains the following tests:

• SNR
• Uniformity

Usage

Users should make themselves familiar with the PumpIA user interface

To run the collection:

1. Clone the repository
2. Use an environment manager to install the requirements from requirements.txt or install the requirements using the command pip install -r requirements.txt when in the repository directory
3. Run the run_uniform_rpt_collection.py script

To use the collection:

1. Load the folder with the relevant images
2. Drag and drop the series containing the relevant images into the viewer of the Main tab
3. Generate the ROIs and run analysis
4. Correct the context if required (see below)
   • Re-run generating ROIs
5. Move any ROIs as required, this should be done through their relevant modules.
   • Re-run analysis
6. Copy the results in the relevant format. Horizontal is tab separated, vertical is new line separated.

Correcting Context

The context used for this collection is the Auto Phantom Context Manager provided with PumpIA, see the relevant documentation for this.