tag:joss.theoj.org,2005:/papers/tagged/locksJournal of Open Source Software2023-12-05T14:34:22ZJournal of Open Source Softwarehttps://joss.theoj.orgtag:joss.theoj.org,2005:Paper/45552023-12-05T14:34:22Z2023-12-06T00:00:47ZBoxKit: A Python library to manage analysis of block-structured simulation datasetsaccepted2023.062023-06-20 21:41:09 UTC922023-12-05 14:34:22 UTC820235649AkashDhruvArgonne National Laboratory, USA0000-0003-4997-321X10.21105/joss.05649https://doi.org/10.5281/zenodo.10257565Python, C++https://joss.theoj.org/papers/10.21105/joss.05649.pdfblock structured datasets, simulation analysis, machine learning, performance optimizationtag:joss.theoj.org,2005:Paper/31752022-03-16T16:47:24Z2022-03-17T00:01:31Zpyscreener: A Python Wrapper for Computational Docking Softwareacceptedv1.1.12021-11-17 21:42:18 UTC712022-03-16 16:47:24 UTC720223950DavidE.GraffDepartment of Chemistry and Chemical Biology, Harvard University, Department of Chemical Engineering, Massachusetts Institute of Technology0000-0003-1250-3329ConnorW.ColeyDepartment of Chemical Engineering, Massachusetts Institute of Technology, Department of Electrical Engineering and Computer Science, Massachusetts Institute of Technology0000-0002-8271-872310.21105/joss.03950https://doi.org/10.5281/zenodo.6327783Pythonhttps://joss.theoj.org/papers/10.21105/joss.03950.pdfdrug discovery, distributed computing, molecular dockingtag:joss.theoj.org,2005:Paper/25322021-08-31T18:25:45Z2021-09-01T00:01:21ZSynch: A framework for concurrent data-structures and benchmarksacceptedv2.3.12021-03-22 09:39:00 UTC642021-08-31 18:25:45 UTC620213143NikolaosD.KallimanisInstitute of Computer Science - Foundation for Research and Technology-Hellas (FORTH-ICS)0000-0002-0331-147510.21105/joss.03143https://doi.org/10.5281/zenodo.5347958C, Objective-C, C++https://joss.theoj.org/papers/10.21105/joss.03143.pdfConcurrent data-structures, benchmarks, queues, stacks, combining-objects, hash-tables, locks, wait-free, lock-free, performance evaluationtag:joss.theoj.org,2005:Paper/17312020-11-10T15:24:07Z2021-02-15T11:30:31ZTalisman: a JavaScript archive of fuzzy matching, information retrieval and record linkage building blocksaccepted1.1.22020-06-11 15:37:50 UTC552020-11-10 15:24:07 UTC520202405GuillaumePliquemédialab, SciencesPo Paris0000-0003-4916-847210.21105/joss.02405https://doi.org/10.5281/zenodo.4247869JavaScripthttps://joss.theoj.org/papers/10.21105/joss.02405.pdfjavascript, fuzzy matching, natural language processing, phonetic algorithms, stemmers, inflectors, deduplication, record linkage, entity resolution, similarity metrics, information retrieval, search engines, tokenizerstag:joss.theoj.org,2005:Paper/9382019-05-12T16:57:08Z2021-02-15T11:32:22ZAMReX: a framework for block-structured adaptive mesh refinementacceptedcurrent master branch on github2019-03-23 00:03:22 UTC372019-05-12 16:57:08 UTC420191370WeiqunZhangCenter for Computational Sciences and Engineering (CCSE), Lawrence Berkeley National Laboratory, Berkeley, CA, USA0000-0001-8092-1974AnnAlmgrenCenter for Computational Sciences and Engineering (CCSE), Lawrence Berkeley National Laboratory, Berkeley, CA, USA0000-0003-2103-312XVinceBecknerCenter for Computational Sciences and Engineering (CCSE), Lawrence Berkeley National Laboratory, Berkeley, CA, USAJohnBellCenter for Computational Sciences and Engineering (CCSE), Lawrence Berkeley National Laboratory, Berkeley, CA, USA0000-0002-5749-334XJohannesBlaschkeCenter for Computational Sciences and Engineering (CCSE), Lawrence Berkeley National Laboratory, Berkeley, CA, USA0000-0002-6024-3990CyChanComputational Research Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA0000-0001-6881-827XMarcusDayCenter for Computational Sciences and Engineering (CCSE), Lawrence Berkeley National Laboratory, Berkeley, CA, USA0000-0002-1711-3963BrianFriesenNational Energy Research Scientific Computing Center (NERSC), Berkeley, CA, USA0000-0002-1572-1631KevinGottNational Energy Research Scientific Computing Center (NERSC), Berkeley, CA, USA0000-0003-3244-5525DanielGravesComputational Research Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA0000-0001-9730-7217MaxP.KatzNVIDIA Corporation, Santa Clara, CA, USA0000-0003-0439-4556AndrewMyersCenter for Computational Sciences and Engineering (CCSE), Lawrence Berkeley National Laboratory, Berkeley, CA, USA0000-0001-8427-8330TanNguyenComputational Research Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA0000-0003-3748-403XAndrewNonakaCenter for Computational Sciences and Engineering (CCSE), Lawrence Berkeley National Laboratory, Berkeley, CA, USA0000-0003-1791-0265MicheleRossoCenter for Computational Sciences and Engineering (CCSE), Lawrence Berkeley National Laboratory, Berkeley, CA, USA0000-0001-8126-7425SamuelWilliamsComputational Research Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA0000-0002-8327-5717MichaelZingaleDepartment of Physics and Astronomy, Stony Brook University, Stony Brook, NY, USA0000-0001-8401-030X10.21105/joss.01370https://doi.org/10.5281/zenodo.2754709C++, Fortran, Chttps://joss.theoj.org/papers/10.21105/joss.01370.pdfadaptive mesh refinement, block-structured, finite volume, partial differential equationstag:joss.theoj.org,2005:Paper/8042019-02-10T11:19:07Z2021-02-15T11:32:41ZMultiblock PLS: Block dependent prediction modeling for Pythonacceptedv1.0.02019-01-06 20:42:11 UTC342019-02-10 11:19:07 UTC420191190AndreasBaumDepartment of Applied Mathematics and Computer Science, Technical University of Denmark, Richard Petersens Plads 324, DK-2800 Kgs. Lyngby, Denmark0000-0003-1552-0220LaurentVermueDepartment of Applied Mathematics and Computer Science, Technical University of Denmark, Richard Petersens Plads 324, DK-2800 Kgs. Lyngby, Denmark0000-0002-3403-762410.21105/joss.01190https://doi.org/10.5281/zenodo.2560303Pythonhttps://joss.theoj.org/papers/10.21105/joss.01190.pdfmultivariate statistics, data fusion, latent variables, exploratory analysis, data integration, MB-PLStag:joss.theoj.org,2005:Paper/2672017-09-20T00:00:00Z2021-02-15T11:33:56ZSimuPy: A Python framework for modeling and simulating dynamical systemsacceptedv1.0.02017-08-30 02:21:24 UTC172017-09-20 00:00:00 UTC22017396BenjaminW. l.MargolisUniversity of California, Davis0000-0001-5602-188810.21105/joss.00396https://doi.org/10.5281/zenodo.896706Pythonhttps://joss.theoj.org/papers/10.21105/joss.00396.pdfsimulation, block diagramtag:joss.theoj.org,2005:Paper/2032017-06-07T00:00:00Z2021-02-15T11:34:06ZBioPandas: Working with molecular structures in pandas DataFramesacceptedv2.1.02017-06-01 00:08:43 UTC142017-06-07 00:00:00 UTC22017279SebastianRaschkaMichigan State University, East-Lansing, USA0000-0001-6989-449310.21105/joss.00279https://doi.org/10.5281/zenodo.804030Pythonhttps://joss.theoj.org/papers/10.21105/joss.00279.pdfbioinformatics, computational biology, protein structure analysis, protein-ligand docking, virtual screeningtag:joss.theoj.org,2005:Paper/622016-10-30T00:00:00Z2021-02-15T11:34:25ZCorrelation Trait Loci (CTL) mapping: phenotype network inference subject to genotypeacceptedv1.0.0-joss-12016-09-26 11:13:22 UTC62016-10-30 00:00:00 UTC1201687DannyArendsHumboldt University, Berlin, Germany,, University of Groningen, The Netherlands0000-0001-8738-0162YangLiUniversity of Groningen, The Netherlands, University Medical Center Groningen, The Netherlands0000-0003-4022-7341GudrunA.BrockmannHumboldt University, Berlin, Germany,0000-0002-4387-2947RitsertC.JansenUniversity of Groningen, The Netherlands0000-0003-2977-9110RobertW.WilliamsUniversity of Tennessee Health Science Center, USA0000-0001-8924-4447PjotrPrinsUniversity of Groningen, The Netherlands, University Medical Center Utrecht, The Netherlands, University Medical Center Utrecht, The Netherlands0000-0002-8021-916210.21105/joss.00087https://doi.org/10.5281/zenodo.163510C, D, Rhttps://joss.theoj.org/papers/10.21105/joss.00087.pdfbioinformatics, genetics, genomics