tag:joss.theoj.org,2005:/papers/tagged/gradientsJournal of Open Source Software2024-03-22T13:55:40ZJournal of Open Source Softwarehttps://joss.theoj.orgtag:joss.theoj.org,2005:Paper/48192024-03-22T13:55:40Z2024-03-23T00:01:17Zcheckpoint_schedules: schedules for incremental checkpointing of adjoint simulationsacceptedv1.0.02023-09-28 08:06:01 UTC952024-03-22 13:55:40 UTC920246148DaianeI.DolciDepartment of Mathematics, Imperial College London, London, United Kingdom.0000-0002-1435-9538JamesR.MaddisonSchool of Mathematics and Maxwell Institute for Mathematical Sciences, The University of Edinburgh, United Kingdom.0000-0001-5742-4363DavidA.HamDepartment of Mathematics, Imperial College London, London, United Kingdom.0000-0001-9545-9110GuillaumePallezInria, University of Rennes, Rennes, France.0000-0001-8862-3277JulienHerrmannCNRS, IRIT, Université de Toulouse, Toulouse, France.0000-0003-4935-236810.21105/joss.06148https://doi.org/10.5281/zenodo.10817312Pythonhttps://joss.theoj.org/papers/10.21105/joss.06148.pdfCheckpointing methods, Adjoint-based gradienttag:joss.theoj.org,2005:Paper/32932022-04-18T15:53:10Z2022-04-19T00:00:54ZSGMCMCJax: a lightweight JAX library for stochastic gradient Markov chain Monte Carlo algorithmsaccepted0.2.92022-01-17 18:25:10 UTC722022-04-18 15:53:10 UTC720224113JeremieCoullonCervest, London, UK0000-0002-7032-3425ChristopherNemethLancaster University, UK0000-0002-9084-386610.21105/joss.04113https://doi.org/10.5281/zenodo.6460681Pythonhttps://joss.theoj.org/papers/10.21105/joss.04113.pdfJAX, MCMC, SGMCMC, Bayesian inferencetag:joss.theoj.org,2005:Paper/23752021-07-29T10:29:16Z2021-07-30T00:02:30ZPXO (Poly-XTAL Operations): MATLAB Codebase to Generate, Analyse and Export Complex 2D Spatio-Temporally Gradient Grain Structuresaccepted10.0.22021-02-07 14:43:01 UTC632021-07-29 10:29:16 UTC620213190SunilAnandatheerthaCoventry University, Priory street, Coventry, United Kingdom, CV1 5FB0000-0001-6535-819110.21105/joss.03190https://doi.org/10.5281/zenodo.5142160Matlab, Mhttps://joss.theoj.org/papers/10.21105/joss.03190.pdfgrain structure generation, texture and grain structuretag:joss.theoj.org,2005:Paper/26222021-06-22T10:44:33Z2021-06-23T00:02:52Zexoplanet: Gradient-based probabilistic inference for exoplanet data & other astronomical time seriesacceptedv0.5.02021-05-04 17:12:30 UTC622021-06-22 10:44:33 UTC620213285DanielForeman-MackeyCenter for Computational Astrophysics, Flatiron Institute, New York, NY, USA0000-0002-9328-5652RodrigoLugerCenter for Computational Astrophysics, Flatiron Institute, New York, NY, USA, Virtual Planetary Laboratory, University of Washington, Seattle, WA, USA0000-0002-0296-3826EricAgolDepartment of Astronomy, University of Washington, University of Washington, Seattle, WA, USA, Virtual Planetary Laboratory, University of Washington, Seattle, WA, USA0000-0002-0802-9145ThomasBarclayCenter for Space Sciences and Technology, University of Maryland, Baltimore County, Baltimore, MD, USA0000-0001-7139-2724LukeG.BoumaDepartment of Astrophysical Sciences, Princeton University, Princeton, NJ, USA0000-0002-0514-5538TimothyD.BrandtDepartment of Physics, University of California, Santa Barbara, Santa Barbara, CA, USA0000-0003-2630-8073IanCzekalaDepartment of Astronomy and Astrophysics, The Pennsylvania State University, University Park, PA, USA, Center for Exoplanets and Habitable Worlds, The Pennsylvania State University, University Park, PA, USA, Center for Astrostatistics, The Pennsylvania State University, University Park, PA, USA, Institute for Computational and Data Sciences, The Pennsylvania State University, University Park, PA, USA0000-0002-1483-8811TrevorJ.DavidCenter for Computational Astrophysics, Flatiron Institute, New York, NY, USA, Department of Astrophysics, American Museum of Natural History, New York, NY, USA0000-0001-6534-6246JiayinDongDepartment of Astronomy and Astrophysics, The Pennsylvania State University, University Park, PA, USA, Center for Exoplanets and Habitable Worlds, The Pennsylvania State University, University Park, PA, USA0000-0002-3610-6953EmilyA.GilbertDepartment of Astronomy and Astrophysics, University of Chicago, Chicago, IL, USA0000-0002-0388-8004TylerA.GordonDepartment of Astronomy, University of Washington, University of Washington, Seattle, WA, USA0000-0001-5253-1987ChristinaHedgesNASA Ames Research Center, Moffett Field, CA, USA, Bay Area Environmental Research Institute, Moffett Field, CA, USA0000-0002-3385-8391DanielR.HeySydney Institute for Astronomy, School of Physics, University of Sydney, Camperdown, New South Wales, Australia, Stellar Astrophysics Centre, Department of Physics and Astronomy, Aarhus University, Aarhus, Denmark0000-0003-3244-5357BrettM.MorrisCenter for Space and Habitability, University of Bern, Bern, Switzerland0000-0003-2528-3409AdrianM.Price-WhelanCenter for Computational Astrophysics, Flatiron Institute, New York, NY, USA0000-0003-0872-7098ArjunB.SavelDepartment of Astronomy, University of Maryland, College Park, MD, USA0000-0002-2454-768X10.21105/joss.03285https://doi.org/10.5281/zenodo.5006965Pythonhttps://joss.theoj.org/papers/10.21105/joss.03285.pdfastronomytag:joss.theoj.org,2005:Paper/11782019-10-11T11:03:51Z2021-02-15T11:31:43ZPYCV: a PLUMED 2 Module Enabling the Rapid Prototyping of Collective Variables in Pythonacceptedv1.12019-08-21 09:57:51 UTC422019-10-11 11:03:51 UTC420191773ToniGiorginoInstitute of Biophysics (IBF-CNR), National Research Council of Italy0000-0001-6449-059610.21105/joss.01773https://doi.org/10.5281/zenodo.3480171C++, Pythonhttps://joss.theoj.org/papers/10.21105/joss.01773.pdfPLUMED, molecular dynamics, collective variables, biased sampling, gradienttag:joss.theoj.org,2005:Paper/7662019-06-18T11:45:46Z2021-02-15T11:32:42Zdolfin-adjoint 2018.1: automated adjoints for FEniCS and Firedrakeaccepted2018.12018-12-31 16:39:19 UTC382019-06-18 11:45:46 UTC420191292SebastianK.MituschSimula Research Laboratory0000-0002-8888-6568SimonW.FunkeSimula Research Laboratory0000-0003-4709-8415JørgenS.DokkenSimula Research Laboratory0000-0001-6489-885810.21105/joss.01292https://doi.org/10.5281/zenodo.3247690Python, GLSLhttps://joss.theoj.org/papers/10.21105/joss.01292.pdffinite element method, optimization, adjoint, gradients, partial differential equationstag:joss.theoj.org,2005:Paper/3452018-02-20T22:12:05Z2021-02-15T11:33:44ZG³M-f a global gradient-based groundwater modelling framworkacceptedv1.0.02018-01-04 12:59:56 UTC222018-02-20 22:12:05 UTC32018548RobertReineckeGoethe University Frankfurt0000-0001-5699-858410.21105/joss.00548https://doi.org/10.5281/zenodo.1175540C++, Chttps://joss.theoj.org/papers/10.21105/joss.00548.pdfgroundwater, gradient-based, global, conjugate-gradient