OXSA: An Open-source Magnetic Resonance Spectroscopy Analysis Toolbox in MATLAB

Overview

Journal PLoS One

Specialties General Medicine
Science

Date 2017 Sep 23

PMID 28938003

Citations 51

Authors

Lucian A B Purvis

William T Clarke

Luca Biasiolli

Ladislav Valkovic

Matthew D Robson

Christopher T Rodgers

Affiliations

Soon will be listed here.

Abstract

In vivo magnetic resonance spectroscopy provides insight into metabolism in the human body. New acquisition protocols are often proposed to improve the quality or efficiency of data collection. Processing pipelines must also be developed to use these data optimally. Current fitting software is either targeted at general spectroscopy fitting, or for specific protocols. We therefore introduce the MATLAB-based OXford Spectroscopy Analysis (OXSA) toolbox to allow researchers to rapidly develop their own customised processing pipelines. The toolbox aims to simplify development by: being easy to install and use; seamlessly importing Siemens Digital Imaging and Communications in Medicine (DICOM) standard data; allowing visualisation of spectroscopy data; offering a robust fitting routine; flexibly specifying prior knowledge when fitting; and allowing batch processing of spectra. This article demonstrates how each of these criteria have been fulfilled, and gives technical details about the implementation in MATLAB. The code is freely available to download from https://github.com/oxsatoolbox/oxsa.

Citing Articles

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Interleaved Whole Brain Na-MRI and P-MRSI Acquisitions at 7 Tesla.

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H and P MR Spectroscopy to Assess Muscle Mitochondrial Dysfunction in Long COVID.

Finnigan L, Cassar M, Jafarpour M, Sultana A, Ashkir Z, Azer K Radiology. 2024; 313(3):e233173.

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3D deuterium metabolic imaging (DMI) of the human liver at 7 T using low-rank and subspace model-based reconstruction.

Nam K, Gursan A, Lee N, Klomp D, Wijnen J, Prompers J Magn Reson Med. 2024; 93(5):1860-1873.

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