Abstract：
BACKGROUND:Processing and quantitative analysis of magnetic resonance spectroscopy (MRS) data are far from standardized and require interfacing with third-party software. Here, we present Osprey, a fully integrated open-source data analysis pipeline for MRS data, with seamless integration of pre-processing, linear-combination modelling, quantification, and data visualization. NEW METHOD:Osprey loads multiple common MRS data formats, performs phased-array coil combination, frequency-and phase-correction of individual transients, signal averaging and Fourier transformation. Linear combination modelling of the processed spectrum is carried out using simulated basis sets and a spline baseline. The MRS voxel is coregistered to an anatomical image, which is segmented for tissue correction and quantification is performed based upon modelling parameters and tissue segmentation. The results of each analysis step are visualized in the Osprey GUI. The analysis pipeline is demonstrated in 12 PRESS, 11 MEGA-PRESS, and 8 HERMES datasets acquired in healthy subjects. RESULTS:Osprey successfully loads, processes, models, and quantifies MRS data acquired with a variety of conventional and spectral editing techniques. COMPARISON WITH EXISTING METHOD(S):Osprey is the first MRS software to combine uniform pre-processing, linear-combination modelling, tissue correction and quantification into a coherent ecosystem. Compared to existing compiled, often closed-source modelling software, Osprey's open-source code philosophy allows researchers to integrate state-of-the-art data processing and modelling routines, and potentially converge towards standardization of analysis. CONCLUSIONS:Osprey combines robust, peer-reviewed data processing methods into a modular workflow that is easily augmented by community developers, allowing the rapid implementation of new methods.
journal_name
J Neurosci Methodsjournal_title
Journal of neuroscience methodsauthors
Oeltzschner G,Zöllner HJ,Hui SCN,Mikkelsen M,Saleh MG,Tapper S,Edden RAEdoi
10.1016/j.jneumeth.2020.108827subject
Has Abstractpub_date
2020-09-01 00:00:00pages
108827eissn
0165-0270issn
1872-678Xpii
S0165-0270(20)30250-8journal_volume
343pub_type
杂志文章abstract：:Implantable microfabricated microelectrode arrays represent a versatile and powerful tool to record electrophysiological activity across multiple spatial locations in the brain. Spikes and field potentials, however, correspond to only a fraction of the physiological information available at the neural interface. In ur...
journal_title：Journal of neuroscience methods
pub_type： 杂志文章
doi：10.1016/j.jneumeth.2008.06.036
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abstract：:New conditions for quantitative autoradiographic determination of natriuretic peptide (ANP) binding in rat brain were developed in order to inhibit hormone degradation during incubation without the use of proteinase inhibitors. This procedure includes 1-h preincubation of tissue slices in hypotonic buffer and incubati...
journal_title：Journal of neuroscience methods
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journal_title：Journal of neuroscience methods
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journal_title：Journal of neuroscience methods
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journal_title：Journal of neuroscience methods
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journal_title：Journal of neuroscience methods
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journal_title：Journal of neuroscience methods
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journal_title：Journal of neuroscience methods
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journal_title：Journal of neuroscience methods
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journal_title：Journal of neuroscience methods
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journal_title：Journal of neuroscience methods
pub_type： 杂志文章
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journal_title：Journal of neuroscience methods
pub_type： 杂志文章
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journal_title：Journal of neuroscience methods
pub_type： 杂志文章
doi：10.1016/j.jneumeth.2012.02.018
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journal_title：Journal of neuroscience methods
pub_type： 杂志文章
doi：10.1016/j.jneumeth.2011.02.004
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journal_title：Journal of neuroscience methods
pub_type： 杂志文章
doi：10.1016/j.jneumeth.2010.06.004
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journal_title：Journal of neuroscience methods
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journal_title：Journal of neuroscience methods
pub_type： 杂志文章
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