tag:joss.theoj.org,2005:/papers/in/Jupyter%20NotebookJournal of Open Source Software2024-03-17T15:00:35ZJournal of Open Source Softwarehttps://joss.theoj.orgtag:joss.theoj.org,2005:Paper/50042024-03-17T15:00:35Z2024-03-18T07:46:38ZSelfEEG: A Python library for Self-Supervised Learning in Electroencephalographyacceptedv0.1.02023-12-16 00:30:46 UTC952024-03-17 15:00:35 UTC920246224FedericoDel PupDepartment of Information Engineering, University of Padova, Padova, Italy, Department of Neuroscience, University of Padova, Padova, Italy, Padova Neuroscience Center, University of Padova, Padova, Italy0009-0004-0698-962XAndreaZanolaPadova Neuroscience Center, University of Padova, Padova, Italy0000-0001-6973-8634Louis FabriceTshimangaDepartment of Neuroscience, University of Padova, Padova, Italy, Padova Neuroscience Center, University of Padova, Padova, Italy0009-0002-1240-4830Paolo EmilioMazzonPadova Neuroscience Center, University of Padova, Padova, ItalyManfredoAtzoriDepartment of Neuroscience, University of Padova, Padova, Italy, Padova Neuroscience Center, University of Padova, Padova, Italy, Information Systems Institute, University of Applied Sciences Western Switzerland (HES-SO Valais), Sierre, Switzerland0000-0001-5397-206310.21105/joss.06224https://doi.org/10.5281/zenodo.10813095Jupyter Notebook, Pythonhttps://joss.theoj.org/papers/10.21105/joss.06224.pdfPyTorch, Deep Learning (DL), Self-Supervised Learning (SSL), Contrastive Learning (CL), Electroencephalography (EEG), Biomedical signalstag:joss.theoj.org,2005:Paper/44492024-03-14T19:57:22Z2024-03-15T00:01:22ZOmniTrax: A deep learning-driven multi-animal tracking and pose-estimation add-on for Blenderacceptedv0.2.22023-04-23 08:59:26 UTC952024-03-14 19:57:22 UTC920245549FabianPlumImperial College London, Department of Bioengineering, United Kingdom0000-0003-1012-664610.21105/joss.05549https://doi.org/10.5281/zenodo.10817891Python, Jupyter Notebookhttps://joss.theoj.org/papers/10.21105/joss.05549.pdfBlender, multi-object tracking, pose-estimation, deep learningtag:joss.theoj.org,2005:Paper/50672024-03-10T12:27:59Z2024-03-12T10:21:48ZProject RACCOON: Automated construction of PDB files for polymers and polymer peptide conjugatesacceptedv1.0.12024-01-10 16:52:37 UTC952024-03-10 12:27:59 UTC920246293MoritzL.ObenauerDepartment of Chemistry, Johannes Gutenberg-University Mainz, Duesbergweg 10-14, D-55128 Mainz, Germany0009-0003-8140-9907KaiN.SpauszusDepartment of Chemistry, Johannes Gutenberg-University Mainz, Duesbergweg 10-14, D-55128 Mainz, Germany0009-0006-0650-2273PolBeseniusDepartment of Chemistry, Johannes Gutenberg-University Mainz, Duesbergweg 10-14, D-55128 Mainz, Germany0000-0001-7478-4459FriederikeSchmidInstitute of Physics, Johannes Gutenberg University, Staudingerweg 9, 55128 Mainz, Germany0000-0002-5536-671810.21105/joss.06293https://doi.org/10.5281/zenodo.10776652Jupyter Notebook, Python, Bikeshedhttps://joss.theoj.org/papers/10.21105/joss.06293.pdfcheminformatics, molecular-dynamics-simulatiom, pdb-files, molecular-modelingtag:joss.theoj.org,2005:Paper/49512024-03-09T08:44:26Z2024-03-10T00:01:13Zplotastic: Bridging Plotting and Statistics in Pythonaccepted0.1.02023-11-23 09:55:06 UTC952024-03-09 08:44:26 UTC920246304MartinKuricDepartment of Musculoskeletal Tissue Regeneration, University of Würzburg, Germany0009-0009-7292-7714ReginaEbertDepartment of Musculoskeletal Tissue Regeneration, University of Würzburg, Germany0000-0002-8192-869X10.21105/joss.06304https://doi.org/10.5281/zenodo.10775033Jupyter Notebook, Pythonhttps://joss.theoj.org/papers/10.21105/joss.06304.pdfplotting, statistics, seaborn, pingouintag:joss.theoj.org,2005:Paper/47182024-03-08T15:59:35Z2024-03-09T00:01:01ZMetObs - a Python toolkit for using non-traditional meteorological observationsacceptedv0.1.12023-08-24 12:50:56 UTC952024-03-08 15:59:35 UTC920245916ThomasVergauwenRoyal Meteorological Institute of Belgium, Brussels, Belgium, Ghent University department of Physics and Astronomy, Ghent, Belgium0000-0003-2899-9218MichielVieijraRoyal Meteorological Institute of Belgium, Brussels, Belgium0000-0003-0817-2846AndreiCovaciVrije Universiteit Brussel (VUB), Brussels, Belgium0000-0001-5147-2460AmberJacobsGhent University department of Physics and Astronomy, Ghent, Belgium0000-0002-4628-3988SaraTopGhent University department of Physics and Astronomy, Ghent, Belgium0000-0003-1281-790XWoutDewettinckGhent University department of Physics and Astronomy, Ghent, Belgium0000-0002-0728-5331KobeVandelanotteRoyal Meteorological Institute of Belgium, Brussels, Belgium, Ghent University department of Physics and Astronomy, Ghent, Belgium0009-0001-1252-7315IanHelleboschGhent University department of Physics and Astronomy, Ghent, Belgium, VITO, Mol, Belgium0000-0003-0150-529XStevenCaluwaertsRoyal Meteorological Institute of Belgium, Brussels, Belgium, Ghent University department of Physics and Astronomy, Ghent, Belgium0000-0001-7456-389110.21105/joss.05916https://doi.org/10.5281/zenodo.10794417Jupyter Notebook, Pythonhttps://joss.theoj.org/papers/10.21105/joss.05916.pdfMeteorology, Urban climate, Observationstag:joss.theoj.org,2005:Paper/48582024-03-06T17:32:25Z2024-03-07T00:00:24Zcalorine: A Python package for constructing and sampling neuroevolution potential modelsacceptedv2.02023-10-21 15:02:27 UTC952024-03-06 17:32:25 UTC920246264EricLindgrenDepartment of Physics, Chalmers University of Technology, Gothenburg 412 96, Sweden0000-0002-8549-6839MagnusRahmDepartment of Physics, Chalmers University of Technology, Gothenburg 412 96, Sweden0000-0002-6777-0371ErikFranssonDepartment of Physics, Chalmers University of Technology, Gothenburg 412 96, Sweden0000-0001-5262-3339FredrikErikssonDepartment of Physics, Chalmers University of Technology, Gothenburg 412 96, Sweden0000-0002-7945-5483NicklasÖsterbackaDepartment of Physics, Chalmers University of Technology, Gothenburg 412 96, Sweden0000-0002-6043-4607ZheyongFanCollege of Physical Science and Technology, Bohai University, Jinzhou 121013, P. R. China0000-0002-2253-8210PaulErhartDepartment of Physics, Chalmers University of Technology, Gothenburg 412 96, Sweden0000-0002-2516-606110.21105/joss.06264https://doi.org/10.5281/zenodo.10723374Python, C++, Jupyter Notebookhttps://joss.theoj.org/papers/10.21105/joss.06264.pdfcondensed matter, machine learning, interatomic potentials, force fields, molecular dynamics, neuroevolution, neural networktag:joss.theoj.org,2005:Paper/43802024-02-28T14:01:58Z2024-02-29T00:01:21Zpygwb: a Python-based library for gravitational-wave background searchesacceptedv1.0.02023-03-31 23:09:28 UTC942024-02-28 14:01:58 UTC920245454AriannaI.RenziniLIGO Laboratory, California Institute of Technology, Pasadena, California 91125, USA, Department of Physics, California Institute of Technology, Pasadena, California 91125, USA0000-0002-4589-3987AlbaRomero-RodriguezTheoretische Natuurkunde, Vrije Universiteit Brussel, Pleinlaan 2, B-1050 Brussels, Belgium0000-0003-2275-4164ColmTalbotKavli Institute for Astrophysics and Space Research, Massachusetts Institute of Technology, 77 Massachusetts Ave, Cambridge, MA 02139, USA0000-0003-2053-5582MaxLallemanUniversiteit Antwerpen, Prinsstraat 13, 2000 Antwerpen, België0000-0002-2254-010XShivarajKandhasamyInter-University Centre for Astronomy and Astrophysics, Pune 411007, India0000-0002-4825-6764KevinTurbangTheoretische Natuurkunde, Vrije Universiteit Brussel, Pleinlaan 2, B-1050 Brussels, Belgium, Universiteit Antwerpen, Prinsstraat 13, 2000 Antwerpen, België0000-0002-9296-8603SylviaBiscoveanuKavli Institute for Astrophysics and Space Research, Massachusetts Institute of Technology, 77 Massachusetts Ave, Cambridge, MA 02139, USA, LIGO Laboratory, Massachusetts Institute of Technology, 185 Albany St, Cambridge, MA 02139, USA0000-0001-7616-7366KatarinaMartinovicTheoretical Particle Physics and Cosmology Group, Physics Department, King’s College London, University of London, Strand, London WC2R 2LS, United Kingdom0000-0001-5299-7744PatrickMeyersTheoretical Astrophysics Group, California Institute of Technology, Pasadena, CA 91125, USA0000-0002-2689-0190LeoTsukadaDepartment of Physics, The Pennsylvania State University, University Park, Pennsylvania 16802, USA, Institute for Gravitation and the Cosmos, The Pennsylvania State University, University Park, Pennsylvania 16802, USAKamielJanssensUniversiteit Antwerpen, Prinsstraat 13, 2000 Antwerpen, België, Université Côte d’Azur, Observatoire Côte d’Azur, ARTEMIS, Nice, France0000-0001-8760-4429DerekDavisLIGO Laboratory, California Institute of Technology, Pasadena, California 91125, USA, Department of Physics, California Institute of Technology, Pasadena, California 91125, USA0000-0001-5620-6751AndrewMatasMax Planck Institute for Gravitational Physics (Albert Einstein Institute), D-14476 Potsdam, GeanyPhilipCharltonOzGrav, Charles Sturt University, Wagga Wagga, New South Wales 2678, Australia0000-0002-4263-2706Guo-chinLiuDepartment of Physics, Tamkang University, Danshui Dist., New Taipei City 25137, TaiwanIrinaDvorkinInstitut d’Astrophysique de Paris, Sorbonne Université & CNRS, UMR 7095, 98 bis bd Arago, F-75014 Paris, France0000-0002-2353-919410.21105/joss.05454https://doi.org/10.5281/zenodo.10532825Python, Jupyter Notebookhttps://joss.theoj.org/papers/10.21105/joss.05454.pdfastronomy®, physics, gravitational wavestag:joss.theoj.org,2005:Paper/48132024-02-27T21:24:38Z2024-03-15T08:45:59ZDeepRank2: Mining 3D Protein Structures with Geometric Deep Learningacceptedv2.1.02023-09-22 15:36:51 UTC942024-02-27 21:24:38 UTC920245983GiuliaCrocioniNetherlands eScience Center, Amsterdam, The Netherlands0000-0002-0823-0121DaniL.BodorNetherlands eScience Center, Amsterdam, The Netherlands0000-0003-2109-2349CoosBaakmanCenter for Molecular Bioinformatics, Radboud Universitair Medisch Centrum, Nijmegen, Gelderland, The Netherlands0000-0003-4317-1566FarzanehM.PariziCenter for Molecular Bioinformatics, Radboud Universitair Medisch Centrum, Nijmegen, Gelderland, The Netherlands0000-0003-4230-7492Daniel-T.RademakerCenter for Molecular Bioinformatics, Radboud Universitair Medisch Centrum, Nijmegen, Gelderland, The Netherlands0000-0003-1959-1317GayatriRamakrishnanCenter for Molecular Bioinformatics, Radboud Universitair Medisch Centrum, Nijmegen, Gelderland, The Netherlands0000-0001-8203-2783SvenA.van der BurgNetherlands eScience Center, Amsterdam, The Netherlands0000-0003-1250-6968DarioF.MarzellaCenter for Molecular Bioinformatics, Radboud Universitair Medisch Centrum, Nijmegen, Gelderland, The Netherlands0000-0002-0043-3055JoãoM.c.TeixeiraIndependent Researcher0000-0002-9113-0622LiC.XueCenter for Molecular Bioinformatics, Radboud Universitair Medisch Centrum, Nijmegen, Gelderland, The Netherlands0000-0002-2613-538X10.21105/joss.05983https://doi.org/10.5281/zenodo.10566809Python, Jupyter Notebookhttps://joss.theoj.org/papers/10.21105/joss.05983.pdfPyTorch, structural biology, geometric deep learning, 3D protein structures, protein-protein interfaces, single-residue variants, graph neural networks, convolutional neural networks, DeepRanktag:joss.theoj.org,2005:Paper/48342024-02-20T17:47:08Z2024-02-21T00:01:30ZA GPU-Accelerated Open-Source Python Package for Calculating Powder Diffraction, Small-Angle-, and Total Scattering with the Debye Scattering Equationacceptedv1.0.02023-10-05 07:25:22 UTC942024-02-20 17:47:08 UTC920246024FrederikL.JohansenDepartment of Chemistry & Nano-Science Center, University of Copenhagen, Denmark, Department of Computer Science, University of Copenhagen, Denmark0000-0002-8049-8624AndyS.AnkerDepartment of Energy Conversation and Storage, Technical University of Denmark, Denmark, Department of Chemistry, University of Oxford, United Kingdom0000-0002-7403-6642UlrikFriis-JensenDepartment of Chemistry & Nano-Science Center, University of Copenhagen, Denmark, Department of Computer Science, University of Copenhagen, Denmark0000-0001-6154-1167ErikB.DamDepartment of Computer Science, University of Copenhagen, Denmark0000-0002-8888-2524KirstenM. ø.JensenDepartment of Chemistry & Nano-Science Center, University of Copenhagen, Denmark0000-0003-0291-217XRaghavendraSelvanDepartment of Computer Science, University of Copenhagen, Denmark0000-0003-4302-020710.21105/joss.06024https://doi.org/10.5281/zenodo.10659528Jupyter Notebook, Pythonhttps://joss.theoj.org/papers/10.21105/joss.06024.pdfScattering, Debye Scattering Equation, GPU-accelerated, Nanoparticles, Pair Distribution Function Analysistag:joss.theoj.org,2005:Paper/47612024-02-09T16:11:36Z2024-02-10T00:01:20ZPARMESAN: Meteorological Timeseries and Turbulence Analysis Backed by Symbolic Mathematicsaccepted2.0.02023-09-17 17:01:27 UTC942024-02-09 16:11:36 UTC920246127YannGeorgBüchauEberhard Karls Universität Tübingen, Germany0000-0003-2472-2051HasanMashniEberhard Karls Universität Tübingen, GermanyMatteoBramatiEberhard Karls Universität Tübingen, GermanyVasileiosSavvakisEberhard Karls Universität Tübingen, Germany0000-0001-9568-1766InesSchäferEberhard Karls Universität Tübingen, GermanySaskiaJungEberhard Karls Universität Tübingen, GermanyGabrielaMiranda-GarciaEberhard Karls Universität Tübingen, Germany0000-0001-7127-9529DanielHardtAkaflieg Braunschweig e.V., Braunschweig, Germany0000-0003-0784-3759JensBangeEberhard Karls Universität Tübingen, Germany0000-0003-4075-157310.21105/joss.06127https://doi.org/10.5281/zenodo.10625758Python, Jupyter Notebook, Nixhttps://joss.theoj.org/papers/10.21105/joss.06127.pdfmeteorlogy