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A set of tools for processing Quantitative MR Images
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README.md

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Credit / Blame / Contact - Tobias Wood - tobias.wood@kcl.ac.uk

This Source Code Form is subject to the terms of the Mozilla Public License, v. 2.0. If a copy of the MPL was not distributed with this file, You can obtain one at http://mozilla.org/MPL/2.0/.

If you find the tools useful the author would love to hear from you.

This is the updated version of QUIT based on ITK http://www.itk.org The previous version is here http://github.com/spinicist/old_quit

Brief Description

A collection of programs for processing quantitative MRI data, originally DESPOT but now a wider variety of techniques.

Thanks

Many thanks to Samuel Hurley for many, many suggestions. Thanks to Anna Combes, Amy McDowell and Sjoerd Vos for finding bugs in early versions.

Documentation

Documentation is available at http://quit.readthedocs.io (and the in Docs folder in .rst format).

Installation

Pre-compiled binaries are provided for Linux and Mac OS X in a .tar.gz archive from http://github.com/spinicist/QUIT/releases.

Download the correct archive for your platform, untar it and then ensure that the binaries can be found via your PATH environment variable. The Linux binaries are built with Ubuntu 14.04 with GCC 6. If you need to run on an older version of Linux with a previous version of glibc then you will need to compile from source.

For instructions on how to compile from source, please see the developer page in the documentation.

Usage

Example scripts for mcDESPOT processing are provided in the installation archive. These print usage instructions if you call them with no arguments. They take a set of filenames as input, and you will need to modify the scripts with your particular flip-angles and TRs.

Each product has some basic usage instructions that will be printed with either the -h or --help options, e.g. qimcdespot -h. The majority of programs take the input filenames as arguments on the command-line, and in addition will read an input text file from stdin. For further details, see the documentation, which is also available in the Docs folder.

Getting Help

If you can't find an answer to a problem in the documentation or help strings, you can open an issue, post a question on Neurostars or find the main developer on e-mail (tobias.wood@kcl.ac.uk) and Twitter (@spinicist).

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