Andrés Esteban Duhour, Hernán de la Vega, Liliana Falco, Carlos Coviella, Nicolás Velazco, Rosana Sandler, Macarena Rionda, Mónica Díaz Porres, Leonardo Saravia
The sensitivity of some taxonomic groups to environmental conditions allows for their use as ecological state indicators. In ecological communities, this analysis is of interest to know which species or taxa are indicators of particular environment conditions, taking into account their presence in a set of sampling units. There are different approaches to estimate indicator species, in this work we develop a new tool for this task identifying indicator units defined as species (or taxa) whose observed frequencies are not uniform between environments or groups of sample units. The package provides methods to estimate the indicator species, the belonging of new samples to a given environment, and returns the frequency of taxonomic units in a selected combination of environmental factors as an estimation of the ecological niche. EcoIndicators was tested on a data set provided with the package and on independent samples of soil fauna communities and is freely available in https://github.com/lsaravia/EcoIndicators.
{"title":"Ecoindicators: An R Package for the Identification of Indicator Taxonomic Units","authors":"Andrés Esteban Duhour, Hernán de la Vega, Liliana Falco, Carlos Coviella, Nicolás Velazco, Rosana Sandler, Macarena Rionda, Mónica Díaz Porres, Leonardo Saravia","doi":"10.5334/jors.452","DOIUrl":"https://doi.org/10.5334/jors.452","url":null,"abstract":"The sensitivity of some taxonomic groups to environmental conditions allows for their use as ecological state indicators. In ecological communities, this analysis is of interest to know which species or taxa are indicators of particular environment conditions, taking into account their presence in a set of sampling units. There are different approaches to estimate indicator species, in this work we develop a new tool for this task identifying indicator units defined as species (or taxa) whose observed frequencies are not uniform between environments or groups of sample units. The package provides methods to estimate the indicator species, the belonging of new samples to a given environment, and returns the frequency of taxonomic units in a selected combination of environmental factors as an estimation of the ecological niche. EcoIndicators was tested on a data set provided with the package and on independent samples of soil fauna communities and is freely available in https://github.com/lsaravia/EcoIndicators.","PeriodicalId":37323,"journal":{"name":"Journal of Open Research Software","volume":"7 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2023-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"136304308","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}
Nikolaj Goodger, P. Vamplew, Cameron Foale, Richard Dazeley
{"title":"A NetHack Learning Environment Language Wrapper for Autonomous Agents","authors":"Nikolaj Goodger, P. Vamplew, Cameron Foale, Richard Dazeley","doi":"10.5334/jors.444","DOIUrl":"https://doi.org/10.5334/jors.444","url":null,"abstract":"","PeriodicalId":37323,"journal":{"name":"Journal of Open Research Software","volume":"1 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2023-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"70682492","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}
{"title":"pyHomogeneity: A Python Package for Homogeneity Test of Time Series Data","authors":"M. Hussain, Ishtiak Mahmud, Sheikh Hefzul Bari","doi":"10.5334/jors.427","DOIUrl":"https://doi.org/10.5334/jors.427","url":null,"abstract":"","PeriodicalId":37323,"journal":{"name":"Journal of Open Research Software","volume":"1 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2023-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"70682631","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}
T. Nguyen, Andreas Höfter, Kevin Leonardic, S. Rosenhain, F. Kiessling, W. Sae-Tang, U. Naumann, F. Gremse
{"title":"A Micro-computed Tomography Database and Reference Implementation for Parallel Computations of Trabecular Thickness and Spacing","authors":"T. Nguyen, Andreas Höfter, Kevin Leonardic, S. Rosenhain, F. Kiessling, W. Sae-Tang, U. Naumann, F. Gremse","doi":"10.5334/jors.360","DOIUrl":"https://doi.org/10.5334/jors.360","url":null,"abstract":"","PeriodicalId":37323,"journal":{"name":"Journal of Open Research Software","volume":"1 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2022-03-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"46904179","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}
{"title":"“StudySandboxx: A Tool for Scraping, Sandboxing, Preserving, and Preparing Interactive Web Sites for Use in Human-computer Interaction and Behavioral Studies”","authors":"Gabi Wethor, M. Hale","doi":"10.5334/jors.274","DOIUrl":"https://doi.org/10.5334/jors.274","url":null,"abstract":"","PeriodicalId":37323,"journal":{"name":"Journal of Open Research Software","volume":"1 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"70681519","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}
V. Sochat, Nicholas R. May, I. Cosden, C. Martinez-Ortiz, Sadie L. Bartholomew
ABSTRACT
摘要
{"title":"The Research Software Encyclopedia: A Community Framework to Define Research Software","authors":"V. Sochat, Nicholas R. May, I. Cosden, C. Martinez-Ortiz, Sadie L. Bartholomew","doi":"10.5334/jors.359","DOIUrl":"https://doi.org/10.5334/jors.359","url":null,"abstract":"ABSTRACT","PeriodicalId":37323,"journal":{"name":"Journal of Open Research Software","volume":"1 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"70681596","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}
B. Lima, Nuno Fachada, R. Dinis, Daniel B. Costa, M. Beko
Uavnoma is a set of Python functions and a front-end script for modeling, studying, and analyzing the communication system composed by an unmanned aerial vehicle (UAV) and two ground users. We assume that the UAV acts as an aerial base station to serve the users according to non-orthogonal multiple access (NOMA) principles. For more practical insights, residual hardware impairments (RHI) and imperfect successive interference cancellation (ipSIC) are considered. More specifically, uavnoma allows the modelers to study and visualize the system performance in terms of achievable rate and outage probability. Additionally, the package produces figures and tables showcasing results from the specified performance metrics
{"title":"Uavnoma: A UAV-NOMA Network Model under Non-Ideal Conditions","authors":"B. Lima, Nuno Fachada, R. Dinis, Daniel B. Costa, M. Beko","doi":"10.5334/jors.397","DOIUrl":"https://doi.org/10.5334/jors.397","url":null,"abstract":"Uavnoma is a set of Python functions and a front-end script for modeling, studying, and analyzing the communication system composed by an unmanned aerial vehicle (UAV) and two ground users. We assume that the UAV acts as an aerial base station to serve the users according to non-orthogonal multiple access (NOMA) principles. For more practical insights, residual hardware impairments (RHI) and imperfect successive interference cancellation (ipSIC) are considered. More specifically, uavnoma allows the modelers to study and visualize the system performance in terms of achievable rate and outage probability. Additionally, the package produces figures and tables showcasing results from the specified performance metrics","PeriodicalId":37323,"journal":{"name":"Journal of Open Research Software","volume":"1 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"70681767","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}
Open-Source MUltiple Tests Corrections and FOrmatted Tables Software (MUFOS)
开源多重测试修正和格式化表格软件(MUFOS)
{"title":"Open-Source MUltiple Tests Corrections and FOrmatted Tables Software (MUFOS)","authors":"Nikolay Petrov, V. Atanasov, Trevor Thompson","doi":"10.5334/jors.350","DOIUrl":"https://doi.org/10.5334/jors.350","url":null,"abstract":"Open-Source MUltiple Tests Corrections and FOrmatted Tables Software (MUFOS)","PeriodicalId":37323,"journal":{"name":"Journal of Open Research Software","volume":"49 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"70681643","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}
{"title":"Rho: Application to Analyze Electrical Resistivity","authors":"M. Berrada, R. Secco","doi":"10.5334/jors.417","DOIUrl":"https://doi.org/10.5334/jors.417","url":null,"abstract":"","PeriodicalId":37323,"journal":{"name":"Journal of Open Research Software","volume":"1 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"70681833","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}
Anna-Lena Lamprecht, C. Martinez-Ortiz, M. Barker, Sadie L. Bartholomew, Justin Barton, Neil Philippe Chue Hong, Jeremy Cohen, Stephan Druskat, Jeremy Forest, Jean‐Noel Grad, D. Katz, Robin Richardson, R. Rosca, Douwe Schulte, A. Struck, Marion Weinzierl
As recognition of the vital importance of software for contemporary research is increasing, Research Software Engineering (RSE) is emerging as a discipline in its own right. We present an inventory of relevant research questions about RSE as a basis for future research and initiatives to advance the field, highlighting selected literature and initiatives. This work is the outcome of a RSE community workshop held as part of the 2020 International Series of Online Research Software Events (SORSE) which identified and prioritized key questions across three overlapping themes: people, policy and infrastructure. Almost half of the questions focus on the people theme
{"title":"What Do We (Not) Know About Research Software Engineering?","authors":"Anna-Lena Lamprecht, C. Martinez-Ortiz, M. Barker, Sadie L. Bartholomew, Justin Barton, Neil Philippe Chue Hong, Jeremy Cohen, Stephan Druskat, Jeremy Forest, Jean‐Noel Grad, D. Katz, Robin Richardson, R. Rosca, Douwe Schulte, A. Struck, Marion Weinzierl","doi":"10.5334/jors.384","DOIUrl":"https://doi.org/10.5334/jors.384","url":null,"abstract":"As recognition of the vital importance of software for contemporary research is increasing, Research Software Engineering (RSE) is emerging as a discipline in its own right. We present an inventory of relevant research questions about RSE as a basis for future research and initiatives to advance the field, highlighting selected literature and initiatives. This work is the outcome of a RSE community workshop held as part of the 2020 International Series of Online Research Software Events (SORSE) which identified and prioritized key questions across three overlapping themes: people, policy and infrastructure. Almost half of the questions focus on the people theme","PeriodicalId":37323,"journal":{"name":"Journal of Open Research Software","volume":"1 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"70682075","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}
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