The Critter Package

Introduction

This is a MATLAB package for iterative image reconstruction via a variety of methods. Right now it just supports SCR and STCR (via TV regularization) but in the future it should support other methods such as ESPIRiT with L1-Wavelets, multi-coil STCR and so on.

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This package uses the node package manager to manage its version control and dependencies. To use this package simply:

1. Install Node: https://nodejs.org/en/

2. Run npm install critter at a unix-like terminal.

This will automatically download the files for this package (and the packages it depends on) into a node_modules folder. If you add this folder to your MATLAB path the package Critter will be available.

It is crucial to note the difference in naming conventions between MATLAB and NPM. The npm package name is critter and the MATLAB package name is +Critter. If you are new to MATLAB packages please learn more about them here: http://www.mathworks.com/help/matlab/matlab_oop/scoping-classes-with-packages.html.

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To make sure this software works as expected in the present environment, tests have been provided and can be run by executing Critter.test. These tests provide a very basic data-in data-out testing and it's these example data files that take up the bulk of the size of this repository.

Since all test data is stored in +tests/private, the files in this folder should not be version controlled. You need to tell your local git to not track changes in them via git update-index --assume-unchanged as described here: http://stackoverflow.com/questions/12288212/git-update-index-assume-unchanged-on-directory.

If you want to contribute to this project please keep tests in mind and do not commit any new data without telling git to "assume-unchanged" to avoid bloating the .git file.

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In the docs/ directory some markdown files are provided explaining how to use each of the functions and classes this package provides.