Open-source MR imaging and reconstruction workflow.
Open-source MR imaging and reconstruction workflow.
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DOI：
10.1002/mrm.29384
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发表时间：
2022-12
影响因子：
3.3
通讯作者：
Stoecker, Tony
中科院分区：
文献类型：
--
作者：
Veldmann, Marten;Ehses, Philipp;Chow, Kelvin;Nielsen, Jon-Fredrik;Zaitsev, Maxim;Stoecker, Tony
这项工作提出了一个端到端的开源MR成像工作流程。它在整个成像过程中的快速原型设计方面非常灵活，并集成了独立于供应商的开放式工具。整个工作流程可以在不同的MR平台上共享和执行。它还集成在JEMRIS仿真框架中，这使得可以使用相同的管道从MRI扫描仪上运行的相同序列生成模拟数据进行图像重建。MRI序列可以使用Pulseq框架在Python或JEMRIS中设计，允许简化新序列设计工具的集成。在序列设计过程中，重建所需的采集元数据以MRD格式存储。数据采集可以在Pulseq支持的MRI扫描仪上进行，也可以通过JEMRIS进行模拟。图像重建和后处理管道被实现到Python服务器中，该服务器允许在获取数据时实时处理数据。BART工具箱集成到这个框架中进行图像重建。重建管道通过依赖于供应商的接口支持在线集成。工作流程的灵活性通过不同的示例进行了演示，包括使用CAIPIRINHA加速的3D并行成像、螺旋成像和B0标测。所有序列、数据和相应的处理管道都是公开的。拟议的工作流程是高度灵活的，并允许在成像过程的所有阶段集成先进的工具。该工作流程的所有部分都是开源的，简化了不同MR平台或站点之间的协作，并提高了结果的可重复性。
This work presents an end-to-end open-source MR imaging workflow. It is highly flexible in rapid prototyping across the whole imaging process and integrates vendor-independent openly available tools. The whole workflow can be shared and executed on different MR platforms. It is also integrated in the JEMRIS simulation framework, which makes it possible to generate simulated data from the same sequence that runs on the MRI scanner using the same pipeline for image reconstruction. MRI sequences can be designed in Python or JEMRIS using the Pulseq framework, allowing simplified integration of new sequence design tools. During the sequence design process, acquisition metadata required for reconstruction is stored in the MRD format. Data acquisition is possible on MRI scanners supported by Pulseq and in simulations through JEMRIS. An image reconstruction and postprocessing pipeline was implemented into a Python server that allows real-time processing of data as it’s being acquired. The BART toolbox is integrated into this framework for image reconstruction. The reconstruction pipeline supports online integration through a vendor-dependent interface. The flexibility of the workflow is demonstrated with different examples, containing 3D parallel imaging with CAIPIRINHA acceleration, spiral imaging and B0 mapping. All sequences, data and the corresponding processing pipelines are publicly available. The proposed workflow is highly flexible and allows integration of advanced tools at all stages of the imaging process. All parts of this workflow are open-source, simplifying collaboration across different MR platforms or sites and improving reproducibility of results.
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影响因子：
3.3
作者：
Vannesjo, S. Johanna;Graedel, Nadine N.;Pruessmann, Klaas P.
通讯作者：
Pruessmann, Klaas P.
影响因子：
3.3
作者：
Uecker, Martin;Lai, Peng;Murphy, Mark J.;Virtue, Patrick;Elad, Michael;Pauly, John M.;Vasanawala, Shreyas S.;Lustig, Michael
通讯作者：
Lustig, Michael
影响因子：
3.3
作者：
Layton, Kelvin J.;Kroboth, Stefan;Zaitsev, Maxim
通讯作者：
Zaitsev, Maxim
影响因子：
3.3
作者：
Maier O;Baete SH;Fyrdahl A;Hammernik K;Harrevelt S;Kasper L;Karakuzu A;Loecher M;Patzig F;Tian Y;Wang K;Gallichan D;Uecker M;Knoll F
通讯作者：
Knoll F
影响因子：
3.3
作者：
Stoecker, Tony;Vahedipour, Kaveh;Shah, N. Jon
通讯作者：
Shah, N. Jon