tag:joss.theoj.org,2005:/papers/tagged/reconstructionJournal of Open Source Software2024-02-09T13:51:24ZJournal of Open Source Softwarehttps://joss.theoj.orgtag:joss.theoj.org,2005:Paper/50422024-02-09T13:51:24Z2024-02-10T00:01:17Zelsa: an elegant framework for tomographic reconstructionaccepted0.8.02023-12-20 14:16:50 UTC942024-02-09 13:51:24 UTC920246174DavidFrankDepartment of Computer Science, TUM School of Computation, Information and Technology, Technical University of Munich, Munich, Germany, Munich Institute of Biomedical Engineering, Technical University of Munich, Munich, Germany0009-0006-4989-2144JonasJeltenDepartment of Computer Science, TUM School of Computation, Information and Technology, Technical University of Munich, Munich, Germany, Munich Institute of Biomedical Engineering, Technical University of Munich, Munich, Germany0000-0002-5167-2419TobiasLasserDepartment of Computer Science, TUM School of Computation, Information and Technology, Technical University of Munich, Munich, Germany, Munich Institute of Biomedical Engineering, Technical University of Munich, Munich, Germany0000-0001-5669-920X10.21105/joss.06174https://doi.org/10.5281/zenodo.10609174Python, C++, JavaScripthttps://joss.theoj.org/papers/10.21105/joss.06174.pdfComputed Tomography, X-ray Computed Tomography, Tomography, Tomographic Reconstruction, Inverse Problems, Software Frameworktag:joss.theoj.org,2005:Paper/45442024-01-19T09:43:47Z2024-01-21T09:05:49ZPATATO: a Python photoacoustic tomography analysis toolkitacceptedv0.5.02023-06-14 09:14:00 UTC932024-01-19 09:43:47 UTC920245686ThomasR.ElseCRUK Cambridge Institute, University of Cambridge, United Kingdom, Department of Physics, University of Cambridge, United Kingdom0000-0002-2652-4190JanekGröhlCRUK Cambridge Institute, University of Cambridge, United Kingdom, Department of Physics, University of Cambridge, United Kingdom0000-0002-5332-4856LinaHackerCRUK Cambridge Institute, University of Cambridge, United Kingdom, Department of Physics, University of Cambridge, United Kingdom, Department of Oncology, University of Oxford, United Kingdom0000-0001-5160-0952SarahE.BohndiekCRUK Cambridge Institute, University of Cambridge, United Kingdom, Department of Physics, University of Cambridge, United Kingdom0000-0003-0371-863510.21105/joss.05686https://doi.org/10.5281/zenodo.10255220Python, C++, Cuda, Chttps://joss.theoj.org/papers/10.21105/joss.05686.pdfPhotoacoustics, Imaging, Optoacoustics, MSOT, Reconstruction, Backprojection, Unmixingtag:joss.theoj.org,2005:Paper/39442023-05-12T12:14:29Z2023-05-13T00:01:21ZGraphNeT: Graph neural networks for neutrino telescope event reconstructionacceptedv0.2.22022-10-06 11:55:25 UTC852023-05-12 12:14:29 UTC820234971AndreasSøgaardNiels Bohr Institute, University of Copenhagen, Denmark0000-0002-0823-056XRasmusF.ØrsøeNiels Bohr Institute, University of Copenhagen, Denmark, Technical University of Munich, Germany0000-0001-8890-4124MortenHolmNiels Bohr Institute, University of Copenhagen, Denmark0000-0003-1383-2810LeonBozianuNiels Bohr Institute, University of Copenhagen, Denmark0000-0002-1243-9980AskeRostedChiba University, Japan0000-0003-2410-400XTroelsC.PetersenNiels Bohr Institute, University of Copenhagen, Denmark0000-0003-0221-3037KaareEndrupIversenNiels Bohr Institute, University of Copenhagen, Denmark0000-0001-6533-4085AndreasHermansenNiels Bohr Institute, University of Copenhagen, Denmark0009-0006-1162-9770TimGuggenmosTechnical University of Munich, GermanyPeterAndresenNiels Bohr Institute, University of Copenhagen, Denmark0009-0008-5759-0490MartinHaMinhTechnical University of Munich, Germany0000-0001-7776-4875LudwigNesteTechnical University of Dortmund, Germany0000-0002-4829-3469MoustHolmesNiels Bohr Institute, University of Copenhagen, Denmark0009-0000-8530-7041AxelPonténUppsala University, Sweden0009-0008-2463-2930KaylaLeonardDeHoltonPennsylvania State University, USA0000-0002-8795-0601PhilippEllerTechnical University of Munich, Germany0000-0001-6354-520910.21105/joss.04971https://doi.org/10.5281/zenodo.7928487Pythonhttps://joss.theoj.org/papers/10.21105/joss.04971.pdfmachine learning, deep learning, neural networks, graph neural networks, astrophysics, particle physics, neutrinostag:joss.theoj.org,2005:Paper/34172022-05-30T22:45:05Z2022-05-31T00:01:36ZDIRECT: Deep Image REConstruction Toolkitacceptedv1.0.12022-03-09 18:05:29 UTC732022-05-30 22:45:05 UTC720224278GeorgeYiasemisNetherlands Cancer Institute, University of AmsterdamNikitaMoriakovNetherlands Cancer Institute, Radboud University Medical CenterDimitriosKarkalousosAmsterdam UMC, Biomedical Engineering and PhysicsMatthanCaanAmsterdam UMC, Biomedical Engineering and PhysicsJonasTeuwenNetherlands Cancer Institute, University of Amsterdam, Radboud University Medical Center10.21105/joss.04278https://doi.org/10.5281/zenodo.6594702Pythonhttps://joss.theoj.org/papers/10.21105/joss.04278.pdfPytorch, Deep Learning, Inverse Problem Solver, Image Processing, Deep MRI reconstruction, Accelerated MRItag:joss.theoj.org,2005:Paper/31032022-05-05T15:17:18Z2022-05-06T08:43:39ZThe 3D Slicer RVXLiverSegmentation plug-in for interactive liver anatomy reconstruction from medical imagesaccepted1.0.02021-10-05 19:24:10 UTC732022-05-05 15:17:18 UTC720223920JonasLamyUniversité Lyon 2, LIRIS (UMR 5205) Lyon, FranceThibaultPelletierKitware SAS, Villeurbanne, FranceGuillaumeLienemannUniversité Clermont Auvergne, CNRS, SIGMA Clermont, Institut Pascal, F-63000, Clermont-Ferrand, FranceBenoîtMagninUniversité Clermont Auvergne, CNRS, SIGMA Clermont, Institut Pascal, F-63000, Clermont-Ferrand, FranceBertrandKerautretUniversité Lyon 2, LIRIS (UMR 5205) Lyon, FranceNicolasPassatUniversité de Reims Champagne Ardenne, CReSTIC, EA 3804, 51100 Reims, FranceJulienFinetKitware SAS, Villeurbanne, FranceAntoineVacavantUniversité Clermont Auvergne, CNRS, SIGMA Clermont, Institut Pascal, F-63000, Clermont-Ferrand, France10.21105/joss.03920https://doi.org/10.5281/zenodo.6513517Pythonhttps://joss.theoj.org/papers/10.21105/joss.03920.pdf3D Slicer, medical imaging, image segmentation, image processing, annotation, livertag:joss.theoj.org,2005:Paper/32002022-03-22T13:06:50Z2022-03-23T00:00:48Zhelayo: Reconstructing Sanskrit texts from manuscript witnessesacceptedv0.5 (helayo) v0.8 (matrix editor)2021-12-01 14:16:58 UTC712022-03-22 13:06:50 UTC720224022CharlesLiCentre nationale de la recherche scientifique, École des hautes études en sciences sociales0000-0001-8247-937410.21105/joss.04022https://doi.org/10.5281/zenodo.6334073Haskell, JavaScript, XSLThttps://joss.theoj.org/papers/10.21105/joss.04022.pdfJavascript, critical editing, philology, Sanskrit, sequence alignmenttag:joss.theoj.org,2005:Paper/31392022-03-07T09:01:40Z2022-03-08T00:01:15ZRECOLO: A Python package for the reconstruction of surface pressure loads from kinematic fields using the virtual fields methodacceptedv1.0.02021-10-29 11:57:51 UTC712022-03-07 09:01:40 UTC720223980SindreNordmarkOlufsenStructural Impact Laboratory (SIMLab), Department of Structural Engineering, NTNU - Norwegian University of Science and Technology, Trondheim, Norway, Centre for Advanced Structural Analysis (CASA), Department of Structural Engineering, NTNU - Norwegian University of Science and Technology, Trondheim, NorwayReneKaufmannStructural Impact Laboratory (SIMLab), Department of Structural Engineering, NTNU - Norwegian University of Science and Technology, Trondheim, NorwayEgilFagerholtStructural Impact Laboratory (SIMLab), Department of Structural Engineering, NTNU - Norwegian University of Science and Technology, Trondheim, NorwayVegardAuneStructural Impact Laboratory (SIMLab), Department of Structural Engineering, NTNU - Norwegian University of Science and Technology, Trondheim, Norway, Centre for Advanced Structural Analysis (CASA), Department of Structural Engineering, NTNU - Norwegian University of Science and Technology, Trondheim, Norway10.21105/joss.03980https://doi.org/10.5281/zenodo.6324870Pythonhttps://joss.theoj.org/papers/10.21105/joss.03980.pdfVirtual fields method, Load reconstruction, Parameter identificationtag:joss.theoj.org,2005:Paper/30962021-12-06T17:40:11Z2021-12-13T17:19:25Zshar: An R package to analyze species-habitat associations using point pattern analysisacceptedv1.2.22021-10-01 20:40:43 UTC682021-12-06 17:40:11 UTC620213811MaximilianH. k.HesselbarthDepartment of Ecosystem Modelling, University of Goettingen, Buesgenweg 4, 37077, Goettingen, Department of Ecology and Evolutionary Biology, University of Michigan, 1105 N University Ave, Ann Arbor, Michigan 48109, USA0000-0003-1125-991810.21105/joss.03811https://doi.org/10.5281/zenodo.5761583Rhttps://joss.theoj.org/papers/10.21105/joss.03811.pdfopen source software, spatial point pattern analysis, gamma-test, pattern reconstruction, torus-translation test, randomized-habitats procedure;tag:joss.theoj.org,2005:Paper/28272021-10-07T15:41:14Z2021-10-08T00:03:14ZRadial Interstices Enable Speedy Low-volume Imagingacceptedv0.42021-06-29 14:32:59 UTC662021-10-07 15:41:14 UTC620213500TobiasC.WoodDepartment of Neuroimaging, King's College London0000-0001-7640-5520EmilLjungbergDepartment of Neuroimaging, King's College London0000-0003-1456-7967FlorianWiesingerDepartment of Neuroimaging, King's College London, GE Healthcare0000-0002-5597-605710.21105/joss.03500https://doi.org/10.5281/zenodo.5552973C++, Python, Matlabhttps://joss.theoj.org/papers/10.21105/joss.03500.pdfmri, reconstruction, ZTE, cpptag:joss.theoj.org,2005:Paper/21402021-06-01T09:00:27Z2021-06-02T00:01:18Znetrd: A library for network reconstruction and graph distancesacceptedv0.2.22020-10-29 22:43:37 UTC622021-06-01 09:00:27 UTC620212990StefanMcCabeNetwork Science Institute, Northeastern University, Boston, MA, USA0000-0002-7180-145XLeoTorresNetwork Science Institute, Northeastern University, Boston, MA, USA0000-0002-2675-2775TimothyLaRockNetwork Science Institute, Northeastern University, Boston, MA, USA0000-0003-0801-3917SyedArefinulHaqueNetwork Science Institute, Northeastern University, Boston, MA, USA0000-0002-8371-2366Chia-HungYangNetwork Science Institute, Northeastern University, Boston, MA, USA0000-0002-4936-808XHarrisonHartleNetwork Science Institute, Northeastern University, Boston, MA, USA0000-0002-0917-6112BrennanKleinNetwork Science Institute, Northeastern University, Boston, MA, USA, Laboratory for the Modeling of Biological and Socio-Technical Systems, Northeastern University, Boston, USA0000-0001-8326-504410.21105/joss.02990https://doi.org/10.5281/zenodo.4885375Pythonhttps://joss.theoj.org/papers/10.21105/joss.02990.pdfnetwork science, network reconstruction, graph distance, network dynamics