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000169904 0247_ $$2doi$$a10.1098/rsta.2020.0190
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000169904 0247_ $$2ISSN$$a0962-8428
000169904 0247_ $$2ISSN$$a1364-503X
000169904 0247_ $$2ISSN$$a1471-2962
000169904 0247_ $$2ISSN$$a2053-9231
000169904 0247_ $$2ISSN$$a2053-9258
000169904 0247_ $$2ISSN$$a2054-0272
000169904 0247_ $$2ISSN$$a2054-0299
000169904 037__ $$aDKFZ-2021-01634
000169904 041__ $$aEnglish
000169904 082__ $$a510
000169904 1001_ $$0P:(DE-He78)f363ea6edfc0e28c26aebb5cbf843ee1$$aPeter, Jörg$$b0$$eLast author$$udkfz
000169904 245__ $$aMusiré: multimodal simulation and reconstruction framework for the radiological imaging sciences.
000169904 260__ $$aLondon$$bRoyal Society$$c2021
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000169904 520__ $$aA software-based workflow is proposed for managing the execution of simulation and image reconstruction for SPECT, PET, CBCT, MRI, BLI and FMI packages in single and multimodal biomedical imaging applications. The workflow is composed of a Bash script, the purpose of which is to provide an interface to the user, and to organize data flow between dedicated programs for simulation and reconstruction. The currently incorporated simulation programs comprise GATE for Monte Carlo simulation of SPECT, PET and CBCT, SpinScenario for simulating MRI, and Lipros for Monte Carlo simulation of BLI and FMI. Currently incorporated image reconstruction programs include CASToR for SPECT and PET as well as RTK for CBCT. MetaImage (mhd) standard is used for voxelized phantom and image data format. Meshlab project (mlp) containers incorporating polygon meshes and point clouds defined by the Stanford triangle format (ply) are employed to represent anatomical structures for optical simulation, and to represent tumour cell inserts. A number of auxiliary programs have been developed for data transformation and adaptive parameter assignment. The software workflow uses fully automatic distribution to, and consolidation from, any number of Linux workstations and CPU cores. Example data are presented for clinical SPECT, PET and MRI systems using the Mida head phantom and for preclinical X-ray, PET and BLI systems employing the Digimouse phantom. The presented method unifies and simplifies multimodal simulation setup and image reconstruction management and might be of value for synergistic image research. This article is part of the theme issue 'Synergistic tomographic image reconstruction: part 2'.
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000169904 650_7 $$2Other$$aCT
000169904 650_7 $$2Other$$aMRI
000169904 650_7 $$2Other$$aMonte Carlo simulation
000169904 650_7 $$2Other$$aPET
000169904 650_7 $$2Other$$aSPECT
000169904 650_7 $$2Other$$aimage reconstruction
000169904 650_7 $$2Other$$aoptical imaging
000169904 650_7 $$2Other$$aphantoms
000169904 773__ $$0PERI:(DE-600)1462626-3$$a10.1098/rsta.2020.0190$$gVol. 379, no. 2204, p. 20200190 -$$n2204$$p20200190 -$$tPhilosophical transactions of the Royal Society of London / A$$v379$$x0080-4614$$y2021
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