tag:joss.theoj.org,2005:/papers/tagged/MRS?page=1Journal of Open Source Software2023-09-17T18:20:22ZJournal of Open Source Softwarehttps://joss.theoj.orgtag:joss.theoj.org,2005:Paper/45632023-09-17T18:20:22Z2023-09-18T00:01:06ZSimulated Diffusion in Realistic Imaging Features of Tissue (Sim-DRIFT)acceptedv1.0.02023-06-25 16:14:13 UTC892023-09-17 18:20:22 UTC820235621JacobBlumWashington University in St. Louis, USA0000-0002-4156-4094KainenL.UttWashington University in St. Louis, USA0000-0002-8555-900010.21105/joss.05621https://doi.org/10.5281/zenodo.8351982Pythonhttps://joss.theoj.org/papers/10.21105/joss.05621.pdfDiffusion MRI, Diffusion Tensor Imaging, Biophysics, Monte-Carlo Simulation, CUDAtag:joss.theoj.org,2005:Paper/40942023-03-28T13:04:40Z2023-03-29T08:47:24ZBrainchop: In-browser MRI volumetric segmentation and renderingacceptedv1.4.02022-12-17 19:58:47 UTC832023-03-28 13:04:40 UTC820235098MohamedMasoudTri-institutional Center for Translational Research in Neuroimaging and Data Science (TReNDS), Georgia State University, Georgia Institute of Technology, Emory University, Atlanta, United States of America0000-0002-5365-242XFarfallaHuTri-institutional Center for Translational Research in Neuroimaging and Data Science (TReNDS), Georgia State University, Georgia Institute of Technology, Emory University, Atlanta, United States of America, Department of Computer Science, Georgia State University, Atlanta, United States of America0000-0002-1816-2011SergeyPlisTri-institutional Center for Translational Research in Neuroimaging and Data Science (TReNDS), Georgia State University, Georgia Institute of Technology, Emory University, Atlanta, United States of America, Department of Computer Science, Georgia State University, Atlanta, United States of America0000-0003-0040-036510.21105/joss.05098https://doi.org/10.5281/zenodo.7735848Less, SCSS, JavaScripthttps://joss.theoj.org/papers/10.21105/joss.05098.pdfvisualization, Web machine learning, Magnetic resonance imagingtag:joss.theoj.org,2005:Paper/39612023-01-30T10:25:42Z2023-01-31T12:33:59ZFijiRelax: Fast and noise-corrected estimation of MRI relaxation maps in 3D + tacceptedv4.0.22022-10-14 14:29:38 UTC812023-01-30 10:25:42 UTC820234981RomainFernandezCIRAD, UMR AGAP Institut, F-34398 Montpellier, France, AGAP Institut, Univ Montpellier, CIRAD, INRAE, Institut Agro, Montpellier, France.0000-0003-3670-044XCedricMoisyIFV, French Institute of Vine and Wine, UMT Géno-Vigne, UMR AGAP, F-34398 Montpellier, France.0000-0003-4637-471310.21105/joss.04981https://doi.org/10.5281/zenodo.7554691Java, MATLAB, Pythonhttps://joss.theoj.org/papers/10.21105/joss.04981.pdfFiji, Image analysis, MRI, Relaxometry, Phenotypingtag:joss.theoj.org,2005:Paper/34632022-08-05T18:36:00Z2022-08-06T02:57:34ZOpen-Source Hypothalamic-ForniX (OSHy-X) Atlases and Segmentation Tool for 3T and 7Tacceptedv0.32022-04-11 01:36:26 UTC762022-08-05 18:36:00 UTC720224368JerynChangSchool of Biomedical Sciences, The University of Queensland0000-0002-6659-365XFrederikSteynSchool of Biomedical Sciences, The University of Queensland, Department of Neurology, Royal Brisbane and Women's Hospital, Australia, Wesley Medical Research, The Wesley Hospital, UQ Centre for Clinical Research, The University of Queensland0000-0002-4782-3608ShyuanNgoDepartment of Neurology, Royal Brisbane and Women's Hospital, Australia, Wesley Medical Research, The Wesley Hospital, UQ Centre for Clinical Research, The University of Queensland, Australian Institute of Bioengineering and Nanotechnology, The University of Queensland0000-0002-1388-2108RobertHendersonDepartment of Neurology, Royal Brisbane and Women's Hospital, Australia, Wesley Medical Research, The Wesley Hospital, UQ Centre for Clinical Research, The University of Queensland0000-0002-2820-8183ChristineGuoActiGraph, LLC, Pensacola, FL, USASteffenBollmannCentre for Advanced Imaging, The University of Queensland, School of Information Technology and Electrical Engineering, The University of Queensland0000-0002-2909-0906JurgenFrippCSIRO Health and Biosecurity, The Australian eHealth Research Centre, Brisbane, Australia0000-0001-9705-0079MarkusBarthCentre for Advanced Imaging, The University of Queensland, School of Information Technology and Electrical Engineering, The University of Queensland0000-0002-0520-1843ThomasShawDepartment of Neurology, Royal Brisbane and Women's Hospital, Australia, Centre for Advanced Imaging, The University of Queensland, School of Information Technology and Electrical Engineering, The University of Queensland0000-0003-2490-053210.21105/joss.04368https://doi.org/10.5281/zenodo.6874987Pythonhttps://joss.theoj.org/papers/10.21105/joss.04368.pdfDocker, Apptainer, ANTs, MRI, Segmentation, Multi-atlas label fusiontag:joss.theoj.org,2005:Paper/33882022-06-27T08:46:45Z2022-06-28T00:00:45ZConnectome Mapper 3: A Flexible and Open-Source Pipeline Software for Multiscale Multimodal Human Connectome Mappingacceptedv3.0.32022-02-22 08:28:10 UTC742022-06-27 08:46:45 UTC720224248SebastienTourbierRadiology Department, Centre Hospitalier Universitaire Vaudois and University of Lausanne (CHUV-UNIL), Switzerland0000-0002-4441-899XJoanRue-QueraltRadiology Department, Centre Hospitalier Universitaire Vaudois and University of Lausanne (CHUV-UNIL), Switzerland0000-0002-9595-4557KatharinaGlombBerlin Institute of Health at Charité; Department of Neurology with Experimental Neurology, Brain Simulation Section, Charité Universitätsmedizin Berlin, corporate member of Freie Universität Berlin and Humboldt-Universität zu Berlin, Berlin, Germany0000-0002-4596-4386YasserAleman-GomezRadiology Department, Centre Hospitalier Universitaire Vaudois and University of Lausanne (CHUV-UNIL), Switzerland0000-0001-6067-8639EmelineMullierRadiology Department, Centre Hospitalier Universitaire Vaudois and University of Lausanne (CHUV-UNIL), Switzerland0000-0001-6209-0791AlessandraGriffaDepartment of Clinical Neurosciences, Division of Neurology, Geneva University Hospitals and Faculty of Medicine, University of Geneva, Geneva, Switzerland, Institute of Bioengineering, Center of Neuroprosthetics, École Polytechnique Fédérale De Lausanne (EPFL), Geneva, Switzerland0000-0003-1923-1653MikkelSchöttnerRadiology Department, Centre Hospitalier Universitaire Vaudois and University of Lausanne (CHUV-UNIL), Switzerland0000-0002-4521-9837JonathanWirsichEEG and Epilepsy Unit, University Hospitals and Faculty of Medicine of Geneva, University of Geneva, Geneva, Switzerland0000-0003-0588-9710M.AnılTuncelBlue Brain Project, École polytechnique fédérale de Lausanne (EPFL), Campus Biotech, Geneva, Switzerland0000-0003-0317-2556JakubJancovicFoxight, Geneva, Switzerland0000-0002-3312-3918MeritxellBachCuadraCIBM Center for Biomedical Imaging, Lausanne, Switzerland, Radiology Department, Centre Hospitalier Universitaire Vaudois and University of Lausanne (CHUV-UNIL), Switzerland0000-0003-2730-4285PatricHagmannRadiology Department, Centre Hospitalier Universitaire Vaudois and University of Lausanne (CHUV-UNIL), Switzerland0000-0002-2854-656110.21105/joss.04248https://doi.org/10.5281/zenodo.6645256Pythonhttps://joss.theoj.org/papers/10.21105/joss.04248.pdfneuroscience, pipeline, workflow, connectome, multi-scale, MRI, BIDS, BIDS App, containerized workflows, nipypetag: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/31922022-03-30T22:08:32Z2022-03-31T00:00:56ZViMMS 2.0: A framework to develop, test and optimise fragmentation strategies in LC-MS metabolomicsacceptedv2.02021-11-25 14:30:29 UTC712022-03-30 22:08:32 UTC720223990JoeWandyGlasgow Polyomics, University of Glasgow, United Kingdom0000-0002-3068-4664VinnyDaviesSchool of Mathematics and Statistics, University of Glasgow, United Kingdom0000-0003-1896-8936RossMcBrideSchool of Computing Science, University of Glasgow, United Kingdom0000-0002-0032-9506StefanWeidtGlasgow Polyomics, University of Glasgow, United KingdomSimonRogersSchool of Computing Science, University of Glasgow, United Kingdom0000-0003-3578-4477RónánDalyGlasgow Polyomics, University of Glasgow, United Kingdom0000-0002-1275-682010.21105/joss.03990https://doi.org/10.5281/zenodo.6395052Pythonhttps://joss.theoj.org/papers/10.21105/joss.03990.pdfmass spectrometry, fragmentation, simulation, metabolomicstag:joss.theoj.org,2005:Paper/25662021-12-10T21:14:14Z2022-01-05T20:11:43Zmorse: an R-package to analyse toxicity test dataaccepted3.3.12021-04-09 19:05:42 UTC682021-12-10 21:14:14 UTC620213200VirgileBaudrotUniversity of Lyon, University Lyon 1, CNRS UMR5558, Laboratory de Biometry and Evolutionary Biology, 69100 Villeurbanne, France.SandrineCharlesUniversity of Lyon, University Lyon 1, CNRS UMR5558, Laboratory de Biometry and Evolutionary Biology, 69100 Villeurbanne, France., Corresponding author ([email](mailto:sandrine.charles@univ-lyon1.fr?subject=morse))0000-0003-4604-016610.21105/joss.03200https://doi.org/10.5281/zenodo.5771022R, Lua, Chttps://joss.theoj.org/papers/10.21105/joss.03200.pdfecotoxicology, dataviz, dose-response, GUTS, TKTD, Bayesian inference, Survival, Reproductiontag:joss.theoj.org,2005:Paper/29352021-11-02T23:38:56Z2021-11-03T17:04:01Zspant: An R package for magnetic resonance spectroscopy analysisacceptedv1.14.02021-08-09 14:51:20 UTC672021-11-02 23:38:56 UTC620213646MartinWilsonCentre for Human Brain Health and School of Psychology, University of Birmingham, Birmingham, UK0000-0002-2089-395610.21105/joss.03646https://doi.org/10.5281/zenodo.5592186R, C, Fortran, Rebolhttps://joss.theoj.org/papers/10.21105/joss.03646.pdfspectroscopy, MRS, NMR, medical imaging, neuroimagingtag:joss.theoj.org,2005:Paper/28192021-10-07T16:51:02Z2021-10-08T00:03:15ZMadym: A C++ toolkit for quantitative DCE-MRI analysisacceptedv4.15.02021-06-24 13:38:50 UTC662021-10-07 16:51:02 UTC620213523MichaelBerksQuantitative Biomedical Imaging Laboratory, Division of Cancer Sciences, Manchester, UK0000-0003-4727-2006GeoffJ mParkerCentre for Medical Image Computing, University College London, London, UK, Bioxydyn Ltd, Manchester, UK0000-0003-2934-2234RossLittleQuantitative Biomedical Imaging Laboratory, Division of Cancer Sciences, Manchester, UKSueCheungQuantitative Biomedical Imaging Laboratory, Division of Cancer Sciences, Manchester, UK10.21105/joss.03523https://doi.org/10.5281/zenodo.5554771C++, Chttps://joss.theoj.org/papers/10.21105/joss.03523.pdfDCE-MRI, tracer-kinetic models, pharmacokinetics