tag:joss.theoj.org,2005:/papers/tagged/convectionJournal of Open Source Software2024-01-19T08:12:03ZJournal of Open Source Softwarehttps://joss.theoj.orgtag:joss.theoj.org,2005:Paper/49042024-01-19T08:12:03Z2024-01-20T00:00:42ZCM++ - A Meta-method for Well-Connected Community Detectionacceptedv4.0.02023-10-29 23:28:31 UTC932024-01-19 08:12:03 UTC920246073VikramRamavarapuDepartment of Computer Science, University of Illinois Urbana-Champaign, IL 61801, USA0009-0001-8875-7213FábioJoseAyresInsper Institute, Sao Paulo, Brazil0009-0000-6821-4687MinhyukParkDepartment of Computer Science, University of Illinois Urbana-Champaign, IL 61801, USA0000-0002-8676-7565VidyaKamathPailodiDepartment of Computer Science, University of Illinois Urbana-Champaign, IL 61801, USA0009-0000-0987-5901JoãoAlfredo CardosoLamyInsper Institute, Sao Paulo, Brazil0009-0005-4744-4754TandyWarnowDepartment of Computer Science, University of Illinois Urbana-Champaign, IL 61801, USA0000-0001-7717-3514GeorgeChackoDepartment of Computer Science, University of Illinois Urbana-Champaign, IL 61801, USA0000-0002-2127-189210.21105/joss.06073https://doi.org/10.5281/zenodo.10501118Python, Rhttps://joss.theoj.org/papers/10.21105/joss.06073.pdfCM++, connectivity, minimum cut, complex network analysis, graph, network, degree, clusteringtag:joss.theoj.org,2005:Paper/45982023-10-13T08:34:18Z2023-10-14T00:00:39Zchessboard: An R package for creating network connections based on chess movesaccepted0.12023-07-13 08:51:14 UTC902023-10-13 08:34:18 UTC820235753NicolasCasajusFRB-CESAB, Montpellier, France0000-0002-5537-5294ÉricaRievrsBorgesFRB-CESAB, Montpellier, France0000-0001-7751-6265ÉricTabacchiCNRS, Toulouse, France0000-0001-7729-4439GuillaumeFriedANSES, Montpellier, France0000-0002-3653-195XNicolasMouquetFRB-CESAB, Montpellier, France, MARBEC, Univ Montpellier, CNRS, IFREMER, IRD, Montpellier, France0000-0003-1840-698410.21105/joss.05753https://doi.org/10.5281/zenodo.8424609Rhttps://joss.theoj.org/papers/10.21105/joss.05753.pdfr, package, networks, neighbors, edgestag:joss.theoj.org,2005:Paper/39142022-12-19T15:08:09Z2022-12-20T00:01:26Zteiphy: A Python Package for Converting TEI XML Collations to NEXUS and Other Formatsacceptedv0.1.22022-09-22 12:35:27 UTC802022-12-19 15:08:09 UTC720224879JoeyMcCollumInstitute for Religion and Critical Inquiry, Australian Catholic University, Australia0000-0002-5647-0365RobertTurnbullMelbourne Data Analytics Platform, University of Melboune, Australia0000-0003-1274-675010.21105/joss.04879https://doi.org/10.5281/zenodo.7455638Pythonhttps://joss.theoj.org/papers/10.21105/joss.04879.pdfphylogenetics, text encoding, TEI, NEXUStag:joss.theoj.org,2005:Paper/38962022-12-13T14:47:46Z2022-12-14T00:01:30ZSpectral Connectivity: a python package for computing multitaper spectral estimates and frequency-domain brain connectivity measures on the CPU and GPUacceptedv1.0.32022-09-15 00:44:07 UTC802022-12-13 14:47:46 UTC720224840EricL.DenovellisHoward Hughes Medical Institute - University of California, San Francisco, San Francisco, California, United States of America, Departments of Physiology and Psychiatry, University of California, San Francisco, San Francisco, California, United States of America, Kavli Institute for Fundamental Neuroscience, University of California, San Francisco, San Francisco, California, United States of America0000-0003-4606-087XMaxymMyroshnychenkoNational Institute of Neurological Disorders and Stroke, Bethesda, Maryland, United States of America0000-0001-7790-257XMehradSarmashghiDivision of Systems Engineering, Boston University, Boston, Massachusetts, United States of America0000-0002-7976-6636EmilyP.StephenDepartment of Mathematics and Statistics, Boston University, Boston, Massachusetts, United States of America, Center for Systems Neuroscience, Boston University, Boston, Massachusetts, United States of America0000-0003-1978-962210.21105/joss.04840https://doi.org/10.5281/zenodo.7416614Pythonhttps://joss.theoj.org/papers/10.21105/joss.04840.pdfNeuroscience, Multitaper analysis, Spectral estimation, Brain connectivity measures, Fourier transformtag:joss.theoj.org,2005:Paper/30732022-11-11T11:25:25Z2022-11-14T13:35:42ZFrites: A Python package for functional connectivity analysis and group-level statistics of neurophysiological dataacceptedv0.4.02021-09-21 12:11:23 UTC792022-11-11 11:25:25 UTC720223842EtienneCombrissonInstitut de Neurosciences de la Timone, Aix Marseille Université, UMR 7289 CNRS, 13005, Marseille, France0000-0002-7362-3247RuggeroBasanisiInstitut de Neurosciences de la Timone, Aix Marseille Université, UMR 7289 CNRS, 13005, Marseille, France0000-0003-4776-596XViniciusLimaCordeiroInstitut de Neurosciences de la Timone, Aix Marseille Université, UMR 7289 CNRS, 13005, Marseille, France, Institut de Neurosciences des Systèmes, Aix-Marseille Université, UMR 1106 Inserm, 13005, Marseille, France0000-0001-7115-9041RobinA.aInceInstitute of Neuroscience and Psychology, University of Glasgow, Glasgow, UK0000-0001-8427-0507AndreaBrovelliInstitut de Neurosciences de la Timone, Aix Marseille Université, UMR 7289 CNRS, 13005, Marseille, France0000-0002-5342-133010.21105/joss.03842https://doi.org/10.5281/zenodo.7278278Pythonhttps://joss.theoj.org/papers/10.21105/joss.03842.pdfpython, cognitive neuroscience, computational neuroscience, neuroinformatics, neurophysiology, information theory, information-based measures, statistics, functional connectivity, fixed-effect ffx, random-effect rfx, cluster-based statistics, MEG EEG sEEG LFPs, Granger causalitytag:joss.theoj.org,2005:Paper/29072022-03-30T20:02:38Z2022-03-31T00:00:57ZMandyoc: A finite element code to simulate thermochemical convection in parallelacceptedv0.1.12021-07-27 18:09:36 UTC712022-03-30 20:02:38 UTC720224070VictorSacekInstituto de Astronomia, Geofísica e Ciências Atmosféricas, Universidade de São Paulo, Brazil0000-0001-9598-5081JamisonAssunçãoInstituto de Astronomia, Geofísica e Ciências Atmosféricas, Universidade de São Paulo, Brazil0000-0003-2822-2417AgustinaPesceInstituto Geofísico Sismológico Ing. Volponi, Universidad Nacional de San Juan, Argentina, CONICET, Argentina0000-0002-5538-8845RafaelMonteiroda SilvaInstituto de Astronomia, Geofísica e Ciências Atmosféricas, Universidade de São Paulo, Brazil0000-0001-8645-244310.21105/joss.04070https://doi.org/10.5281/zenodo.6390220C++, Chttps://joss.theoj.org/papers/10.21105/joss.04070.pdfPETSc, mantle convection, lithosphere geodynamics, finite elementtag:joss.theoj.org,2005:Paper/27522021-08-23T19:50:46Z2021-08-24T00:01:08ZAbmarl: Connecting Agent-Based Simulations with Multi-Agent Reinforcement Learningaccepted0.1.22021-06-10 23:06:33 UTC642021-08-23 19:50:46 UTC620213424EdwardRusuLawrence Livermore National Laboratory0000-0003-1033-439XRubenGlattLawrence Livermore National Laboratory10.21105/joss.03424https://doi.org/10.5281/zenodo.5196791Pythonhttps://joss.theoj.org/papers/10.21105/joss.03424.pdfagent-based simulation, multi-agent reinforcement learning, machine learning, agent-based modelingtag:joss.theoj.org,2005:Paper/16652021-08-13T06:53:50Z2021-08-14T00:01:31ZWDPM: the Wetland DEM Ponding Modelacceptedv1.0.02020-05-21 15:23:10 UTC642021-08-13 06:53:50 UTC620212276KevinShookCentre for Hydrology, University of Saskatchewan0000-0003-0363-9929RaymondJ.SpiteriDepartment of Computer Science, University of Saskatchewan0000-0002-3513-6237JohnW.PomeroyCentre for Hydrology, University of Saskatchewan0000-0002-4782-7457TongheLiuDepartment of Computer Science, University of Saskatchewan0000-0002-2714-3103OluwaseunSharomiDepartment of Computer Science, University of Saskatchewan0000-0003-1368-567010.21105/joss.02276https://doi.org/10.5281/zenodo.5165172Python, Chttps://joss.theoj.org/papers/10.21105/joss.02276.pdfhydrology, Canadian Prairies, water distribution, connected fractiontag:joss.theoj.org,2005:Paper/21242021-01-29T17:30:01Z2021-02-15T11:29:49ZOmniscape.jl: Software to compute omnidirectional landscape connectivityacceptedv0.4.32020-10-22 18:46:41 UTC572021-01-29 17:30:01 UTC620212829VincentA.LandauConservation Science Partners, Inc., Fort Collins, Colorado, United States0000-0001-9290-9438ViralB.ShahJulia Computing Inc., Cambridge, Massachusetts, United States0000-0001-9602-4012RanjanAnantharamanMassachusetts Institute of Technology, Cambridge, Massachusetts, United StatesKimberlyR.HallThe Nature Conservancy, Lansing, Michigan, United States0000-0002-7802-355810.21105/joss.02829https://doi.org/10.5281/zenodo.4466323Juliahttps://joss.theoj.org/papers/10.21105/joss.02829.pdfjulia, ecology, circuit theory, habitat connectivity, omniscape, circuitscapetag:joss.theoj.org,2005:Paper/20032020-10-26T00:05:14Z2021-02-15T11:30:02ZSLIX: A Python package for fully automated evaluation of Scattered Light Imaging measurements on brain tissueacceptedv1.12020-08-31 19:48:33 UTC542020-10-26 00:05:14 UTC520202675JanA.ReuterInstitute of Neuroscience and Medicine (INM-1), Forschungszentrum Jülich GmbH, 52425 Jülich, Germany0000-0002-1219-0310MiriamMenzelInstitute of Neuroscience and Medicine (INM-1), Forschungszentrum Jülich GmbH, 52425 Jülich, Germany0000-0002-6042-749010.21105/joss.02675https://doi.org/10.5281/zenodo.4121953Pythonhttps://joss.theoj.org/papers/10.21105/joss.02675.pdflight scattering, dark-field microscopy, brain architecture, connectivity, nerve fiber crossings