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pyflowline: a mesh-independent river network generator for hydrologic models Pyflowline:用于水文模型的网格无关的河网生成器
Journal of open source software Pub Date : 2023-11-07 DOI: 10.21105/joss.05446
Chang Liao, Matt G Cooper
{"title":"pyflowline: a mesh-independent river network generator for hydrologic models","authors":"Chang Liao, Matt G Cooper","doi":"10.21105/joss.05446","DOIUrl":"https://doi.org/10.21105/joss.05446","url":null,"abstract":"","PeriodicalId":94101,"journal":{"name":"Journal of open source software","volume":"40 20","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2023-11-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135432380","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 2
Triumvirate: A Python/C++ package for three-point clustering measurements 用于三点聚类测量的Python/ c++包
Journal of open source software Pub Date : 2023-11-07 DOI: 10.21105/joss.05571
Mike Shengbo Wang, Florian Beutler, Naonori S. Sugiyama
{"title":"Triumvirate: A Python/C++ package for three-point clustering measurements","authors":"Mike Shengbo Wang, Florian Beutler, Naonori S. Sugiyama","doi":"10.21105/joss.05571","DOIUrl":"https://doi.org/10.21105/joss.05571","url":null,"abstract":"Triumvirate is a Python/C++ package for measuring the three-point clustering statistics in large-scale structure (LSS) cosmological analyses. Given a catalogue of discrete particles (such as galaxies) with their spatial coordinates, it computes estimators of the multipoles of the three-point correlation function, also known as the bispectrum in Fourier space, in the tri-polar spherical harmonic (TripoSH) decomposition proposed by Sugiyama et al. (2019). The objective of Triumvirate is to provide efficient end-to-end measurement of clustering statistics which can be fed into downstream galaxy survey analyses to constrain and test cosmological models. To this end, it builds upon the original algorithms in the hitomi code developed by Sugiyama et al. (2018, 2019), and supplies a user-friendly interface with flexible input/output (I/O) of catalogue data and measurement results, with the built program configurable through external parameter files and tracked through enhanced logging and warning/exception handling. For completeness and complementarity, methods for measuring two-point clustering statistics are also included in the package.","PeriodicalId":94101,"journal":{"name":"Journal of open source software","volume":"52 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2023-11-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135480416","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Micro Manager: a Python package for adaptive and flexible two-scale coupling Micro Manager:一个Python包，用于自适应和灵活的双尺度耦合
Journal of open source software Pub Date : 2023-11-07 DOI: 10.21105/joss.05842
Ishaan Desai, Erik Scheurer, Carina Bringedal, Benjamin Uekermann
{"title":"Micro Manager: a Python package for adaptive and flexible two-scale coupling","authors":"Ishaan Desai, Erik Scheurer, Carina Bringedal, Benjamin Uekermann","doi":"10.21105/joss.05842","DOIUrl":"https://doi.org/10.21105/joss.05842","url":null,"abstract":"The Micro Manager facilitates coupling between simulation software packages, which solve problems at different physical scales. Broadly speaking, simulation-based analysis is an effective tool to gain insights in real-world scenarios without incurring the high cost of prototyping and testing. Complex simulations are oftentimes broken down into simpler components, which are resolved by tailor-made software. Such complex simulations can be of multiphysics nature, meaning different physics are solved in different parts of the domain. To do such multiphysics simulations, we can couple different software packages together. preCICE (Chourdakis et al., 2022) is an open-source coupling library for partitioned multiphysics simulations. However, sometimes the coupling is not just between different physics but also different physical scales, which is frequently referred to as multiscale coupling. To understand how the scales affect each other, both scales need to be solved simultaneously while being coupled in a bi-directional manner. The Micro Manager, together with preCICE, is capable of handling a multiphysics and multiscale coupling. We refer to the coarse scale as the macro scale, and the fine scale as the micro scale. The name Micro Manager is derived from its core functionality of controlling a set of micro-scale simulations and coupling them to one macro-scale simulation via preCICE.","PeriodicalId":94101,"journal":{"name":"Journal of open source software","volume":"345 3","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2023-11-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135475294","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
measr: Bayesian psychometric measurement using Stan 测量方法:使用Stan进行贝叶斯心理测量
Journal of open source software Pub Date : 2023-11-06 DOI: 10.21105/joss.05742
W. Jake Thompson
{"title":"measr: Bayesian psychometric measurement using Stan","authors":"W. Jake Thompson","doi":"10.21105/joss.05742","DOIUrl":"https://doi.org/10.21105/joss.05742","url":null,"abstract":"","PeriodicalId":94101,"journal":{"name":"Journal of open source software","volume":"19 11","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2023-11-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135589505","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Machine Learning Validation via Rational Dataset Sampling with astartes 通过Rational数据集采样进行机器学习验证
Journal of open source software Pub Date : 2023-11-05 DOI: 10.21105/joss.05996
Jackson W. Burns, Kevin A. Spiekermann, Himaghna Bhattacharjee, Dionisios G. Vlachos, William H. Green
{"title":"Machine Learning Validation via Rational Dataset Sampling with astartes","authors":"Jackson W. Burns, Kevin A. Spiekermann, Himaghna Bhattacharjee, Dionisios G. Vlachos, William H. Green","doi":"10.21105/joss.05996","DOIUrl":"https://doi.org/10.21105/joss.05996","url":null,"abstract":"","PeriodicalId":94101,"journal":{"name":"Journal of open source software","volume":"79 4","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2023-11-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135725093","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 2
SuperNOVA: Semi-Parametric Identification and Estimation of Interaction and Effect Modification in Mixed Exposures using Stochastic Interventions in R 超新星:R随机干预下混合暴露的半参数识别、相互作用估计和效果修正
Journal of open source software Pub Date : 2023-11-05 DOI: 10.21105/joss.05422
David McCoy, Alejandro Schuler, Alan Hubbard, Mark van der Laan
{"title":"SuperNOVA: Semi-Parametric Identification and Estimation of Interaction and Effect Modification in Mixed Exposures using Stochastic Interventions in R","authors":"David McCoy, Alejandro Schuler, Alan Hubbard, Mark van der Laan","doi":"10.21105/joss.05422","DOIUrl":"https://doi.org/10.21105/joss.05422","url":null,"abstract":"McCoy et al., (2023). SuperNOVA: Semi-Parametric Identification and Estimation of Interaction and Effect Modification in Mixed Exposures using Stochastic Interventions in R. Journal of Open Source Software, 8(91), 5422, https://doi.org/10.21105/joss.05422","PeriodicalId":94101,"journal":{"name":"Journal of open source software","volume":"56 2","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2023-11-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135725280","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
ModeCouplingTheory.jl: A solver for mode-coupling-theory-like integro-differential equations ModeCouplingTheory。[1]一类模耦合积分微分方程的求解方法
Journal of open source software Pub Date : 2023-11-03 DOI: 10.21105/joss.05737
Ilian Pihlajamaa, Corentin C. L. Laudicina, Thomas Voigtmann, Liesbeth M. C. Janssen
{"title":"ModeCouplingTheory.jl: A solver for mode-coupling-theory-like integro-differential equations","authors":"Ilian Pihlajamaa, Corentin C. L. Laudicina, Thomas Voigtmann, Liesbeth M. C. Janssen","doi":"10.21105/joss.05737","DOIUrl":"https://doi.org/10.21105/joss.05737","url":null,"abstract":"Pihlajamaa et al., (2023). ModeCouplingTheory.jl: A solver for mode-coupling-theory-like integro-differential equations. Journal of Open Source Software, 8(91), 5737, https://doi.org/10.21105/joss.05737","PeriodicalId":94101,"journal":{"name":"Journal of open source software","volume":"42 16","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2023-11-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135820023","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
GGoutlieR: an R package to identify and visualize unusual geo-genetic patterns of biological samples GGoutlieR:一个R软件包，用于识别和可视化生物样品的不寻常的地球成因模式
Journal of open source software Pub Date : 2023-11-01 DOI: 10.21105/joss.05687
Che-Wei Chang, Karl Schmid
{"title":"GGoutlieR: an R package to identify and visualize unusual geo-genetic patterns of biological samples","authors":"Che-Wei Chang, Karl Schmid","doi":"10.21105/joss.05687","DOIUrl":"https://doi.org/10.21105/joss.05687","url":null,"abstract":"Chang et al., (2023). GGoutlieR: an R package to identify and visualize unusual geo-genetic patterns of biological samples. Journal of Open Source Software, 8(91), 5687, https://doi.org/10.21105/joss.05687","PeriodicalId":94101,"journal":{"name":"Journal of open source software","volume":"47 3-4","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2023-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135270971","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
PeleLMeX: an AMR Low Mach Number Reactive Flow Simulation Code without level sub-cycling PeleLMeX:无水平子循环的AMR低马赫数反应流模拟代码
Journal of open source software Pub Date : 2023-10-31 DOI: 10.21105/joss.05450
Lucas Esclapez, Marc Day, John Bell, Anne Felden, Candace Gilet, Ray Grout, Marc Henry de Frahan, Emmanuel Motheau, Andrew Nonaka, Landon Owen, Bruce Perry, Jon Rood, Nicolas Wimer, Weiqun Zhang
{"title":"PeleLMeX: an AMR Low Mach Number Reactive Flow Simulation Code without level sub-cycling","authors":"Lucas Esclapez, Marc Day, John Bell, Anne Felden, Candace Gilet, Ray Grout, Marc Henry de Frahan, Emmanuel Motheau, Andrew Nonaka, Landon Owen, Bruce Perry, Jon Rood, Nicolas Wimer, Weiqun Zhang","doi":"10.21105/joss.05450","DOIUrl":"https://doi.org/10.21105/joss.05450","url":null,"abstract":"","PeriodicalId":94101,"journal":{"name":"Journal of open source software","volume":"2008 3","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2023-10-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135813640","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 1
JetNet: A Python package for accessing open datasets and benchmarking machine learning methods in high energy physics JetNet:一个Python包，用于访问开放数据集和对高能物理中的机器学习方法进行基准测试
Journal of open source software Pub Date : 2023-10-30 DOI: 10.21105/joss.05789
Raghav Kansal, Carlos Pareja, Zichun Hao, Javier Duarte
{"title":"JetNet: A Python package for accessing open datasets and benchmarking machine learning methods in high energy physics","authors":"Raghav Kansal, Carlos Pareja, Zichun Hao, Javier Duarte","doi":"10.21105/joss.05789","DOIUrl":"https://doi.org/10.21105/joss.05789","url":null,"abstract":"","PeriodicalId":94101,"journal":{"name":"Journal of open source software","volume":"6 3","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2023-10-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"136104509","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 2
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