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The Journal of Open Source Software
ISSN 2475-9066 · Open Journals · 25 artikel di indeks
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pvlib python: 2023 project update
pvlib python is a community-developed, open-source software toolbox for simulating the performance of solar photovoltaic (PV) energy components and systems.It provides reference implementations of over 100 empirical and physics-based models from the peer-reviewed scientific literature, including…
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jsPsych: Enabling an Open-Source Collaborative Ecosystem of Behavioral Experiments
It is common practice to research human behavior using experiments that participants can complete online.Researchers use a variety of methodological approaches to conduct these studies.Some of this research can be done with survey instruments, for which there are many software options.However, much…
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Makie.jl: Flexible high-performance data visualization for Julia
Makie.jl is a cross-platform plotting ecosystem for the Julia programming language (Bezanson et al., 2012), which enables researchers to create high-performance, GPU-powered, interactive visualizations, as well as publication-quality vector graphics with one unified interface.The infrastructure…
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The targets R package: a dynamic Make-like function-oriented pipeline toolkit for reproducibility and high-performance computing
Landau, W. M., (2021). The targets R package: a dynamic Make-like function-oriented pipeline toolkit for reproducibility and high-performance computing. Journal of Open Source Software, 6(57), 2959, https://doi.org/10.21105/joss.02959
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Augur: a bioinformatics toolkit for phylogenetic analyses of human pathogens
The analysis of human pathogens requires a diverse collection of bioinformatics tools. These tools include standard genomic and phylogenetic software and custom software developed to handle the relatively numerous and short genomes of viruses and bacteria. Researchers increasingly depend on the…
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Taguette: open-source qualitative data analysis
Taguette is a free and open-source computer-assisted qualitative data analysis software (CAQ-DAS) (Knowledge Bank, 2018) package.CAQDAS helps researchers using qualitative methods to organize, annotate, collaborate on, analyze, and visualize their work.Qualitative methods are used in a wide range…
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UltraNest - a robust, general purpose Bayesian inference engine
Fit and compare complex models reliably and rapidly. Advanced nested sampling.
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Nextclade: clade assignment, mutation calling and quality control for viral genomes
The variants of concern (VoCs) of SARS-CoV-2 have highlighted the need for a global molecular surveillance of pathogens via whole genome sequencing.Such sequencing, for SARS-CoV-2 and other pathogens, is performed by an ever increasing number of labs across the globe, resulting in an increased need…
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Visualizations with statistical details: The 'ggstatsplot' approach
Graphical displays can reveal problems in a statistical model that might not be apparent from purely numerical summaries.Such visualizations can also be helpful for the reader to evaluate the validity of a model if it is reported in a scholarly publication or report.But, given the onerous costs…
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Semi-Automatic Classification Plugin: A Python tool for the download and processing of remote sensing images in QGIS
Congedo, L., (2021). Semi-Automatic Classification Plugin: A Python tool for the download and processing of remote sensing images in QGIS. Journal of Open Source Software, 6(64), 3172, https://doi.org/10.21105/joss.03172
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microViz: an R package for microbiome data visualization and statistics
microViz is an R package for the statistical analysis and visualization of microbiota data.This package extends the functionality of popular microbial ecosystem data analysis R packages, including phyloseq (McMurdie & Holmes, 2013), vegan (Oksanen et al., 2020) and microbiome (Lahti & Shetty…
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academictwitteR: an R package to access the Twitter Academic Research Product Track v2 API endpoint
Barrie et al., (2021). academictwitteR: an R package to access the Twitter Academic Research Product Track v2 API endpoint. Journal of Open Source Software, 6(62), 3272, https://doi.org/10.21105/joss.03272
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seaborn: statistical data visualization
seaborn is a library for making statistical graphics in Python.It provides a high-level interface to matplotlib and integrates closely with pandas data structures.Functions in the seaborn library expose a declarative, dataset-oriented API that makes it easy to translate questions about data into…
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performance: An R Package for Assessment, Comparison and Testing of Statistical Models
A crucial part of statistical analysis is evaluating a model's quality and fit, or performance.During analysis, especially with regression models, investigating the fit of models to data also often involves selecting the best fitting model amongst many competing models.Upon investigation, fit…
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CMasher: Scientific colormaps for making accessible, informative and 'cmashing' plots
CMasher is a Python package that provides a curated collection of scientific colormaps, showcased in the online documentation (https://cmasher.readthedocs.io). The colormaps in CMasher are all designed to be perceptually uniform sequential using the 'viscm' package; most of them are color-vision…
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Spleeter: a fast and efficient music source separation tool with pre-trained models
We present and release a new tool for music source separation with pre-trained models called Spleeter.Spleeter was designed with ease of use, separation performance, and speed in mind.Spleeter is based on Tensorflow (Abadi, 2015) and makes it possible to:• split music audio files into several stems…
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PypeIt: The Python Spectroscopic Data Reduction Pipeline
PypeIt is a Python package for semi-automated reduction of astronomical, spectroscopic data.Its algorithms build on decades-long development of previous data reduction pipelines by the developers (Bernstein et al., 2015;Bochanski et al., 2009).The reduction procedure -including a complete list of…
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A parallel global multiobjective framework for optimization: pagmo
Mathematical optimization is pervasive in all quantitative sciences.The ability to find good parameters values in a generic numerical experiment while meeting complex constraints is of great importance and, as such, has always been an active research topic of mathematics, numerics and, more…
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sbi: A toolkit for simulation-based inference
Scientists and engineers employ stochastic numerical simulators to model empirically observed phenomena.In contrast to purely statistical models, simulators express scientific principles that provide powerful inductive biases, improve generalization to new data or scenarios and allow for fewer…