Advanced processing and simulation of MRS data using the FID appliance (FID-A)An open source, MATLAB-based toolkit
Advanced processing and simulation of MRS data using the FID appliance (FID-A)An open source, MATLAB-based toolkit
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DOI：
10.1002/mrm.26091
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发表时间：
2017-01-01
影响因子：
3.3
通讯作者：
Near, Jamie
中科院分区：
文献类型：
--
作者：
Simpson, Robin;Devenyi, Gabriel A.;Near, Jamie
目的介绍一种新的磁共振波谱（MRS）数据模拟和处理工具包，并展示其一些新功能。方法FID器具（FID- a）是一个基于matlab的开源软件工具包，用于模拟和处理MRS数据。该软件是专门设计用于处理数据与多个维度（例如，多个射频信道，平均，频谱编辑维度）。它配备了以大多数主要MRI供应商（例如，西门子，飞利浦，GE，安捷伦）的格式导入数据的功能，并将数据导出为几种常用处理软件包（例如，LCModel, jMRUI, Tarquin）的格式。本文介绍了FID-A软件工具包，并使用示例来演示其新功能，即1)使用频谱配准算法自动执行有用的处理程序，2)自动检测和去除运动损坏的扫描，以及3)从单个软件执行MRS计算工作流的几个主要方面的能力。后一种特征通过对体内gaba编辑的MEGA-PRESS MRS数据的高级处理以及详细的量子力学模拟来说明，以生成用于分析相同数据的精确LCModel基础集。结果与未经处理的数据相比，所有描述的处理步骤都显著提高了光谱质量。与一般的MEGA-PRESS基集相比，使用定制基集对MEGA-PRESS数据进行拟合可以提高拟合精度。结论fida软件工具包能够对MRS数据进行高水平的处理，并能准确模拟体内MRS实验。中华医学杂志（英文版），2017。(c) 2015 Wiley期刊公司
PurposeTo introduce a new toolkit for simulation and processing of magnetic resonance spectroscopy (MRS) data, and to demonstrate some of its novel features.MethodsThe FID appliance (FID-A) is an open-source, MATLAB-based software toolkit for simulation and processing of MRS data. The software is designed specifically for processing data with multiple dimensions (eg, multiple radiofrequency channels, averages, spectral editing dimensions). It is equipped with functions for importing data in the formats of most major MRI vendors (eg, Siemens, Philips, GE, Agilent) and for exporting data into the formats of several common processing software packages (eg, LCModel, jMRUI, Tarquin). This paper introduces the FID-A software toolkit and uses examples to demonstrate its novel features, namely 1) the use of a spectral registration algorithm to carry out useful processing routines automatically, 2) automatic detection and removal of motion-corrupted scans, and 3) the ability to perform several major aspects of the MRS computational workflow from a single piece of software. This latter feature is illustrated through both high-level processing of in vivo GABA-edited MEGA-PRESS MRS data, as well as detailed quantum mechanical simulations to generate an accurate LCModel basis set for analysis of the same data.ResultsAll of the described processing steps resulted in a marked improvement in spectral quality compared with unprocessed data. Fitting of MEGA-PRESS data using a customized basis set resulted in improved fitting accuracy compared with a generic MEGA-PRESS basis set.ConclusionsThe FID-A software toolkit enables high-level processing of MRS data and accurate simulation of in vivo MRS experiments. Magn Reson Med 77:23-33, 2017. (c) 2015 Wiley Periodicals, Inc.