tag:joss.theoj.org,2005:/papers/tagged/file?page=1Journal of Open Source Software2024-03-10T12:27:59ZJournal of Open Source Softwarehttps://joss.theoj.orgtag: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/49062024-02-12T12:06:13Z2024-02-13T00:01:22ZFasten: a toolkit for streaming operations on fastq filesacceptedv0.7.22023-10-30 19:01:17 UTC942024-02-12 12:06:13 UTC920246030LeeS.KatzEnteric Diseases Laboratory Branch (EDLB), Centers for Disease Control and Prevention, Atlanta, GA, United States of America, Center for Food Safety, University of Georgia, Griffin, GA, United States of America0000-0002-2533-9161JohnPhanGeneral Dynamics Information Technology Inc., Atlanta, GA, United States of America0000-0002-4670-2660HenkC. denBakkerEnteric Diseases Laboratory Branch (EDLB), Centers for Disease Control and Prevention, Atlanta, GA, United States of America0000-0002-4086-158010.21105/joss.06030https://doi.org/10.5281/zenodo.10621531Rusthttps://joss.theoj.org/papers/10.21105/joss.06030.pdfcommand line, fastq manipulation, interleaved fastqtag:joss.theoj.org,2005:Paper/47012023-10-16T14:06:34Z2023-10-17T00:00:43ZGridFormat: header-only C++-library for grid file I/Oacceptedv0.12023-08-15 10:30:05 UTC902023-10-16 14:06:34 UTC820235778DennisGläserUniversity of Stuttgart, Germany0000-0001-9646-881XTimoKochUniversity of Oslo, Norway0000-0003-4776-5222BerndFlemischUniversity of Stuttgart, Germany0000-0001-8188-620X10.21105/joss.05778https://doi.org/10.5281/zenodo.10008062C++, Pythonhttps://joss.theoj.org/papers/10.21105/joss.05778.pdfsimulationtag:joss.theoj.org,2005:Paper/41712023-08-14T16:43:04Z2023-08-15T00:01:42Zms3: A parser for MuseScore files, serving as data factory for annotated music corporaaccepted1.1.22023-01-17 22:15:45 UTC882023-08-14 16:43:04 UTC820235195JohannesHentschelÉcole Polytechnique Fédérale de Lausanne, Switzerland0000-0002-1986-9545MartinRohrmeierÉcole Polytechnique Fédérale de Lausanne, Switzerland0000-0002-4323-725710.21105/joss.05195https://doi.org/10.5281/zenodo.8154984Pythonhttps://joss.theoj.org/papers/10.21105/joss.05195.pdfpython, music, scores, corpus, corpora, data, musescore, tab-separated valuestag:joss.theoj.org,2005:Paper/39682023-07-29T09:43:49Z2023-07-30T15:43:15ZLightshow: a Python package for generating computational x-ray absorption spectroscopy input filesacceptedv0.0.142022-10-18 01:07:43 UTC872023-07-29 09:43:49 UTC820235182MatthewR.CarboneComputational Science Initiative, Brookhaven National Laboratory, Upton, New York 11973, United States0000-0002-5181-9513FanchenMengCenter for Functional Nanomaterials, Brookhaven National Laboratory, Upton, New York 11973, United States0000-0001-9869-9005ChristianVorwerkPritzker School of Molecular Engineering, University of Chicago, Chicago, IL 60637, United States0000-0002-2516-9553BenediktMaurerPhysics Department and IRIS Adlershof, Humboldt-Universität zu Berlin, D-12489 Berlin, Germany0000-0001-9152-7390FabianPeschelPhysics Department and IRIS Adlershof, Humboldt-Universität zu Berlin, D-12489 Berlin, Germany0000-0003-0619-6713XiaohuiQuCenter for Functional Nanomaterials, Brookhaven National Laboratory, Upton, New York 11973, United States0000-0001-5651-8405EliStavitskiNational Synchrotron Light Source II, Brookhaven National Laboratory, Upton, New York 11973, United States0000-0002-3337-2930ClaudiaDraxlPhysics Department and IRIS Adlershof, Humboldt-Universität zu Berlin, D-12489 Berlin, Germany0000-0003-3523-6657JohnVinsonMaterial Measurement Laboratory, National Institute of Standards and Technology, Gaithersburg, Maryland 20899, United States0000-0002-7619-7060DeyuLuCenter for Functional Nanomaterials, Brookhaven National Laboratory, Upton, New York 11973, United States0000-0003-4351-608510.21105/joss.05182https://doi.org/10.5281/zenodo.8118592Python, Jupyter Notebookhttps://joss.theoj.org/papers/10.21105/joss.05182.pdfcomputational spectroscopy, condensed matter physics, materials sciencetag:joss.theoj.org,2005:Paper/37322023-04-05T12:33:29Z2023-04-06T00:03:30ZRTMsim - A Julia module for filling simulations in Resin Transfer Moulding with the Finite Area Methodacceptedv1.0.12022-07-20 06:49:04 UTC842023-04-05 12:33:29 UTC820234763ChristofObertscheiderAerospace Engineering Department, University of Applied Sciences Wiener Neustadt, Johannes-Gutenberg-Straße 3, 2700, Wiener Neustadt, AustriaEwaldFausterProcessing of Composites Group, Department Polymer Engineering and Science, Montanuniversität Leoben, Otto Glöckl-Straße 2, 8700 Leoben, Austria10.21105/joss.04763https://doi.org/10.5281/zenodo.7799266Juliahttps://joss.theoj.org/papers/10.21105/joss.04763.pdfComputational Fluid Dynamics (CFD), Shell mesh, Resin Transfer moulding (RTM), Liquid composite moulding (LCM), Filling simulationtag:joss.theoj.org,2005:Paper/35062022-11-04T14:47:30Z2022-12-12T17:16:39Zpython-ags4: A Python library to read, write, and validate AGS4 geodata filesaccepted0.3.72022-04-16 21:13:47 UTC792022-11-04 14:47:30 UTC720224569AsithaI.SenanayakeNorwegian Geotechnical Institute (formerly Fugro USA Marine, Inc.)0000-0001-7525-1160RogerJ.ChandlerSeequentTonyDalyAssociation of Geotechnical and Geoenvironmental SpecialistsEdwardLewisBritish Geological Survey, Keyworth, UK0000-0003-2685-383X10.21105/joss.04569https://doi.org/10.5281/zenodo.7264282Pythonhttps://joss.theoj.org/papers/10.21105/joss.04569.pdfgeodata, geotechnical, geoenvironmental, geophysics, geosciencetag:joss.theoj.org,2005:Paper/30662022-09-05T09:44:41Z2022-09-06T00:01:16ZSwalbe.jl: A lattice Boltzmann solver for thin film hydrodynamicsaccepted0.1.02021-09-12 21:19:29 UTC772022-09-05 09:44:41 UTC720224312StefanZitzHelmholtz Institute Erlangen-Nürnberg for Renewable Energy, Erlangen, Germany, Department of Science and Environment, Roskilde University, Roskilde, Denmark, Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen, Germany0000-0002-2371-5610ManuelZellhöferHelmholtz Institute Erlangen-Nürnberg for Renewable Energy, Erlangen, GermanyAndreaScagliariniConsiglio Nazionale delle Ricerche (CNR), Roma, Italy, INFN, sezione Roma "Tor Vergata", Roma, Italy0000-0002-3893-746XJensHartingHelmholtz Institute Erlangen-Nürnberg for Renewable Energy, Erlangen, Germany, Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen, Germany0000-0002-9200-662310.21105/joss.04312https://doi.org/10.5281/zenodo.7030890Juliahttps://joss.theoj.org/papers/10.21105/joss.04312.pdfjulia, lattice Boltzmann method, thin liquid films, computational fluid dynamics, CPU/GPUtag:joss.theoj.org,2005:Paper/36422022-08-18T21:45:12Z2022-10-11T07:03:01ZUnROOT: an I/O library for the CERN ROOT file format written in Juliaacceptedv0.8.82022-06-03 17:16:37 UTC762022-08-18 21:45:12 UTC720224452TamásGálErlangen Centre for Astroparticle Physics, Friedrich-Alexander-Universität Erlangen-Nürnberg0000-0001-7821-8673Jerry(Jiahong)LingHarvard University0000-0002-3359-0380NickAminUniversity of California, Santa Barbara0000-0003-2560-001310.21105/joss.04452https://doi.org/10.5281/zenodo.7008076Juliahttps://joss.theoj.org/papers/10.21105/joss.04452.pdfHEPtag:joss.theoj.org,2005:Paper/36492022-08-03T05:35:20Z2022-08-04T00:00:36Zxtal2png: A Python package for representing crystal structure as PNG filesacceptedv0.4.02022-06-09 06:06:03 UTC762022-08-03 05:35:20 UTC720224528SterlingG.BairdMaterials Science & Engineering, University of Utah, USA0000-0002-4491-6876KevinM.JablonkaLaboratory of Molecular Simulation (LSMO), Institut des Sciences et Ingénierie Chimique, École Polytechnique Fédérale de Lausanne, Switzerland0000-0003-4894-4660MichaelD.AlversonMaterials Science & Engineering, University of Utah, USA, Computer Science, University of Southern California, USA0000-0002-4857-7584HasanM.SayeedMaterials Science & Engineering, University of Utah, USA0000-0002-6583-7755MohammedFarisKhanMaterials Science & Engineering, University of Utah, USA0000-0001-7527-6368ColtonSeegmillerComputer Science, Utah Valley University, USA0000-0001-9511-2918BerendSmitLaboratory of Molecular Simulation (LSMO), Institut des Sciences et Ingénierie Chimique, École Polytechnique Fédérale de Lausanne, Switzerland0000-0003-4653-8562TaylorD.SparksMaterials Science & Engineering, University of Utah, USA0000-0001-8020-771110.21105/joss.04528https://doi.org/10.5281/zenodo.6941663Mathematica, Pythonhttps://joss.theoj.org/papers/10.21105/joss.04528.pdfmaterials informatics, crystal structure, computer vision, image-based predictions