PreQual: An automated pipeline for integrated preprocessing and quality assurance of diffusion weighted MRI images.
PreQual: An automated pipeline for integrated preprocessing and quality assurance of diffusion weighted MRI images.
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DOI：
10.1002/mrm.28678
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发表时间：
2021-07
影响因子：
3.3
通讯作者：
Landman BA
中科院分区：
文献类型：
--
作者：
Cai LY;Yang Q;Hansen CB;Nath V;Ramadass K;Johnson GW;Conrad BN;Boyd BD;Begnoche JP;Beason-Held LL;Shafer AT;Resnick SM;Taylor WD;Price GR;Morgan VL;Rogers BP;Schilling KG;Landman BA
磁共振弥散加权成像（DWI）经常受到低信噪比（SNR）和伪影。最近的工作已经产生了软件工具，可以纠正个别问题，但这些工具还没有相互结合，并与质量保证（QA）。提出了一个单一的集成管道，以执行DWI预处理的工具谱，并产生一个直观的QA文件。拟议的管道，围绕FSL，MRTrix 3和ANTs软件包，执行DWI去噪;扫描间强度归一化;磁化率，涡流和运动诱导的伪影校正;和切片信号脱落插补。为了对原始数据和预处理数据以及每个预处理操作执行QA，管道记录了定性可视化、定量图、梯度验证以及张量拟合优度和分数各向异性分析。原始DWI数据进行预处理，并与拟议的管道进行质量检查，并证明改善SNR;生理强度比;校正磁化率，涡流和运动诱导的伪影;插补信号丢失切片;和改进张量拟合。该管道识别了不正确的梯度配置和文件类型转换错误，并在外部可用数据集上显示出有效性。拟议的管道是一个单一的集成管道，结合了主要的MRI重点软件包与直观的QA既定的扩散预处理工具。
Diffusion weighted MRI imaging (DWI) is often subject to low signal-to-noise ratios (SNRs) and artifacts. Recent work has produced software tools that can correct individual problems, but these tools have not been combined with each other and with quality assurance (QA). A single integrated pipeline is proposed to perform DWI preprocessing with a spectrum of tools and produce an intuitive QA document. The proposed pipeline, built around the FSL, MRTrix3, and ANTs software packages, performs DWI denoising; inter-scan intensity normalization; susceptibility-, eddy current-, and motion-induced artifact correction; and slice-wise signal drop-out imputation. To perform QA on the raw and preprocessed data and each preprocessing operation, the pipeline documents qualitative visualizations, quantitative plots, gradient verifications, and tensor goodness-of-fit and fractional anisotropy analyses. Raw DWI data were preprocessed and quality checked with the proposed pipeline and demonstrated improved SNRs; physiologic intensity ratios; corrected susceptibility-, eddy current-, and motion-induced artifacts; imputed signal-lost slices; and improved tensor fits. The pipeline identified incorrect gradient configurations and file-type conversion errors and was shown to be effective on externally available datasets. The proposed pipeline is a single integrated pipeline that combines established diffusion preprocessing tools from major MRI-focused software packages with intuitive QA.
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影响因子：
5.7
作者：
Bastiani M;Cottaar M;Fitzgibbon SP;Suri S;Alfaro-Almagro F;Sotiropoulos SN;Jbabdi S;Andersson JLR
通讯作者：
Andersson JLR
影响因子：
5.7
作者：
Bello, Lorenzo;Gambini, Anna;Falini, Andrea
通讯作者：
Falini, Andrea
影响因子：
5.7
作者：
Andersson JLR;Graham MS;Drobnjak I;Zhang H;Campbell J
通讯作者：
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影响因子：
5.7
作者：
Harms MP;Somerville LH;Ances BM;Andersson J;Barch DM;Bastiani M;Bookheimer SY;Brown TB;Buckner RL;Burgess GC;Coalson TS;Chappell MA;Dapretto M;Douaud G;Fischl B;Glasser MF;Greve DN;Hodge C;Jamison KW;Jbabdi S;Kandala S;Li X;Mair RW;Mangia S;Marcus D;Mascali D;Moeller S;Nichols TE;Robinson EC;Salat DH;Smith SM;Sotiropoulos SN;Terpstra M;Thomas KM;Tisdall MD;Ugurbil K;van der Kouwe A;Woods RP;Zöllei L;Van Essen DC;Yacoub E
通讯作者：
Yacoub E
影响因子：
10.9
作者：
Avants, B. B.;Epstein, C. L.;Gee, J. C.
通讯作者：
Gee, J. C.