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r-bst
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Functional gradient descent algorithm for a variety of convex and non-convex loss functions, for both classical and robust regression and classification problems. See Wang (2011) <doi:10.2202/1557-4679.1304>, Wang (2012) <doi:10.3414/ME11-02-0020>, Wang (2018) <doi:10.1080/10618600.2018.1424635>, Wang (2018) <doi:10.1214/18-EJS1404>.
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2025-03-25 |
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r-bsicons
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public |
Easily use 'Bootstrap' icons inside 'Shiny' apps and 'R Markdown' documents. More generally, icons can be inserted in any 'htmltools' document through inline 'SVG'.
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2025-03-25 |
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r-bshazard
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The function estimates the hazard function non parametrically from a survival object (possibly adjusted for covariates). The smoothed estimate is based on B-splines from the perspective of generalized linear mixed models. Left truncated and right censoring data are allowed.
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2025-03-25 |
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r-brucer
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Broadly useful convenient and efficient R functions that bring users concise and elegant R data analyses. This package includes easy-to-use functions for (1) basic R programming (e.g., set working directory to the path of currently opened file; import/export data from/to files in any format; print tables to Microsoft Word); (2) multivariate computation (e.g., compute scale sums/means/... with reverse scoring); (3) reliability analyses and factor analyses; (4) descriptive statistics and correlation analyses; (5) t-test, multi-factor analysis of variance (ANOVA), simple-effect analysis, and post-hoc multiple comparison; (6) tidy report of statistical models (to R Console and Microsoft Word); (7) mediation and moderation analyses (PROCESS); and (8) additional toolbox for statistics and graphics.
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2025-03-25 |
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r-broom.mixed
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public |
Convert fitted objects from various R mixed-model packages into tidy data frames along the lines of the 'broom' package. The package provides three S3 generics for each model: tidy(), which summarizes a model's statistical findings such as coefficients of a regression; augment(), which adds columns to the original data such as predictions, residuals and cluster assignments; and glance(), which provides a one-row summary of model-level statistics.
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2025-03-25 |
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r-broom.helpers
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Provides suite of functions to work with regression model 'broom::tidy()' tibbles. The suite includes functions to group regression model terms by variable, insert reference and header rows for categorical variables, add variable labels, and more.
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2025-03-25 |
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r-bridgesampling
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Provides functions for estimating marginal likelihoods, Bayes factors, posterior model probabilities, and normalizing constants in general, via different versions of bridge sampling (Meng & Wong, 1996, <http://www3.stat.sinica.edu.tw/statistica/j6n4/j6n43/j6n43.htm>). Gronau, Singmann, & Wagenmakers (2020) <doi:10.18637/jss.v092.i10>.
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2025-03-25 |
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r-brms
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public |
Fit Bayesian generalized (non-)linear multivariate multilevel models using 'Stan' for full Bayesian inference. A wide range of distributions and link functions are supported, allowing users to fit -- among others -- linear, robust linear, count data, survival, response times, ordinal, zero-inflated, hurdle, and even self-defined mixture models all in a multilevel context. Further modeling options include both theory-driven and data-driven non-linear terms, auto-correlation structures, censoring and truncation, meta-analytic standard errors, and quite a few more. In addition, all parameters of the response distribution can be predicted in order to perform distributional regression. Prior specifications are flexible and explicitly encourage users to apply prior distributions that actually reflect their prior knowledge. Models can easily be evaluated and compared using several methods assessing posterior or prior predictions. References: Bürkner (2017) <doi:10.18637/jss.v080.i01>; Bürkner (2018) <doi:10.32614/RJ-2018-017>; Bürkner (2021) <doi:10.18637/jss.v100.i05>; Carpenter et al. (2017) <doi:10.18637/jss.v076.i01>.
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2025-03-25 |
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r-bootnet
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public |
Bootstrap methods to assess accuracy and stability of estimated network structures and centrality indices <doi:10.3758/s13428-017-0862-1>. Allows for flexible specification of any undirected network estimation procedure in R, and offers default sets for various estimation routines.
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2025-03-25 |
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r-botor
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public |
Fork-safe, raw access to the 'Amazon Web Services' ('AWS') 'SDK' via the 'boto3' 'Python' module, and convenient helper functions to query the 'Simple Storage Service' ('S3') and 'Key Management Service' ('KMS'), partial support for 'IAM', the 'Systems Manager Parameter Store' and 'Secrets Manager'.
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2025-03-25 |
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r-bonsai
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public |
Bindings for additional tree-based model engines for use with the 'parsnip' package. Models include gradient boosted decision trees with 'LightGBM' (Ke et al, 2017.) and conditional inference trees and conditional random forests with 'partykit' (Hothorn and Zeileis, 2015. and Hothorn et al, 2006. <doi:10.1198/106186006X133933>).
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2025-03-25 |
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r-blogdown
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public |
Write blog posts and web pages in R Markdown. This package supports the static site generator 'Hugo' (<https://gohugo.io>) best, and it also supports 'Jekyll' (<https://jekyllrb.com>) and 'Hexo' (<https://hexo.io>).
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2025-03-25 |
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r-blandr
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Carries out Bland Altman analyses (also known as a Tukey mean-difference plot) as described by JM Bland and DG Altman in 1986 <doi:10.1016/S0140-6736(86)90837-8>. This package was created in 2015 as existing Bland-Altman analysis functions did not calculate confidence intervals. This package was created to rectify this, and create reproducible plots. This package is also available as a module for the 'jamovi' statistical spreadsheet (see <https://www.jamovi.org> for more information).
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2025-03-25 |
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r-blastula
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public |
Compose and send out responsive HTML email messages that render perfectly across a range of email clients and device sizes. Helper functions let the user insert embedded images, web link buttons, and 'ggplot2' plot objects into the message body. Messages can be sent through an 'SMTP' server, through the 'RStudio Connect' service, or through the 'Mailgun' API service <https://www.mailgun.com/>.
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2025-03-25 |
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r-bkmr
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public |
Implementation of a statistical approach for estimating the joint health effects of multiple concurrent exposures, as described in Bobb et al (2015) <doi:10.1093/biostatistics/kxu058>.
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2025-03-25 |
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r-biostatr
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public |
Datasets and functions for the book "Initiation à la Statistique avec R", F. Bertrand and M. Maumy-Bertrand (2022, ISBN:978-2100782826 Dunod, fourth edition).
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2025-03-25 |
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r-biotools
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public |
Tools designed to perform and evaluate cluster analysis (including Tocher's algorithm), discriminant analysis and path analysis (standard and under collinearity), as well as some useful miscellaneous tools for dealing with sample size and optimum plot size calculations. A test for seed sample heterogeneity is now available. Mantel's permutation test can be found in this package. A new approach for calculating its power is implemented. biotools also contains tests for genetic covariance components. Heuristic approaches for performing non-parametric spatial predictions of generic response variables and spatial gene diversity are implemented.
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2025-03-25 |
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r-biostat3
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Utility functions, datasets and extended examples for survival analysis. This extends a range of other packages, some simple wrappers for time-to-event analyses, datasets, and extensive examples in HTML with R scripts. The package also supports the course Biostatistics III entitled "Survival analysis for epidemiologists in R".
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2025-03-25 |
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r-biodiversityr
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public |
Graphical User Interface (via the R-Commander) and utility functions (often based on the vegan package) for statistical analysis of biodiversity and ecological communities, including species accumulation curves, diversity indices, Renyi profiles, GLMs for analysis of species abundance and presence-absence, distance matrices, Mantel tests, and cluster, constrained and unconstrained ordination analysis. A book on biodiversity and community ecology analysis is available for free download from the website. In 2012, methods for (ensemble) suitability modelling and mapping were expanded in the package.
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2025-03-25 |
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r-biomod2
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public |
Functions for species distribution modeling, calibration and evaluation, ensemble of models, ensemble forecasting and visualization. The package permits to run consistently up to 10 single models on a presence/absences (resp presences/pseudo-absences) dataset and to combine them in ensemble models and ensemble projections. Some bench of other evaluation and visualisation tools are also available within the package.
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2025-03-25 |
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r-binsreg
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Provides tools for statistical analysis using the binscatter methods developed by Cattaneo, Crump, Farrell and Feng (2023a) <arXiv:1902.09608>, Cattaneo, Crump, Farrell and Feng (2023b) <https://nppackages.github.io/references/Cattaneo-Crump-Farrell-Feng_2023_NonlinearBinscatter.pdf> and Cattaneo, Crump, Farrell and Feng (2023c) <arXiv:1902.09615>. Binscatter provides a flexible way of describing the relationship between two variables based on partitioning/binning of the independent variable of interest. binsreg(), binsqreg() and binsglm() implement binscatter least squares regression, quantile regression and generalized linear regression respectively, with particular focus on constructing binned scatter plots. They also implement robust (pointwise and uniform) inference of regression functions and derivatives thereof. binstest() implements hypothesis testing procedures for parametric functional forms of and nonparametric shape restrictions on the regression function. binspwc() implements hypothesis testing procedures for pairwise group comparison of binscatter estimators. binsregselect() implements data-driven procedures for selecting the number of bins for binscatter estimation. All the commands allow for covariate adjustment, smoothness restrictions and clustering.
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2025-03-25 |
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r-binhf
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public |
Binomial Haar-Fisz transforms for Gaussianization as in Nunes and Nason (2009).
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2025-03-25 |
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r-bingroup
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public |
Methods for estimation and hypothesis testing of proportions in group testing designs: methods for estimating a proportion in a single population (assuming sensitivity and specificity equal to 1 in designs with equal group sizes), as well as hypothesis tests and functions for experimental design for this situation. For estimating one proportion or the difference of proportions, a number of confidence interval methods are included, which can deal with various different pool sizes. Further, regression methods are implemented for simple pooling and matrix pooling designs. Methods for identification of positive items in group testing designs: Optimal testing configurations can be found for hierarchical and array-based algorithms. Operating characteristics can be calculated for testing configurations across a wide variety of situations.
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2025-03-25 |
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r-binman
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public |
Tools and functions for managing the download of binary files. Binary repositories are defined in 'YAML' format. Defining new pre-download, download and post-download templates allow additional repositories to be added.
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2025-03-25 |
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r-billboarder
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public |
Provides an 'htmlwidgets' interface to 'billboard.js', a re-usable easy interface JavaScript chart library, based on D3 v4+. Chart types include line charts, scatterplots, bar/lollipop charts, histogram/density plots, pie/donut charts and gauge charts. All charts are interactive, and a proxy method is implemented to smoothly update a chart without rendering it again in 'shiny' apps.
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2025-03-25 |
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r-bigqueryr
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Interface with 'Google BigQuery', see <https://cloud.google.com/bigquery/> for more information. This package uses 'googleAuthR' so is compatible with similar packages, including 'Google Cloud Storage' (<https://cloud.google.com/storage/>) for result extracts.
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2025-03-25 |
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r-bigparallelr
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public |
Utility functions for easy parallelism in R. Include some reexports from other packages, utility functions for splitting and parallelizing over blocks, and choosing and setting the number of cores used.
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2025-03-25 |
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r-bigleaf
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public |
Calculation of physical (e.g. aerodynamic conductance, surface temperature), and physiological (e.g. canopy conductance, water-use efficiency) ecosystem properties from eddy covariance data and accompanying meteorological measurements. Calculations assume the land surface to behave like a 'big-leaf' and return bulk ecosystem/canopy variables.
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2025-03-25 |
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r-bigd
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public |
Format dates and times flexibly and to whichever locales make sense. Parses dates, times, and date-times in various formats (including string-based ISO 8601 constructions). The formatting syntax gives the user many options for formatting the date and time output in a precise manner. Time zones in the input can be expressed in multiple ways and there are many options for formatting time zones in the output as well. Several of the provided helper functions allow for automatic generation of locale-aware formatting patterns based on date/time skeleton formats and standardized date/time formats with varying specificity.
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2025-03-25 |
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r-bien
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Provides Tools for Accessing the Botanical Information and Ecology Network Database. The BIEN database contains cleaned and standardized botanical data including occurrence, trait, plot and taxonomic data (See <https://bien.nceas.ucsb.edu/bien/> for more Information). This package provides functions that query the BIEN database by constructing and executing optimized SQL queries.
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2025-03-25 |
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r-bibliometrix
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public |
Tool for quantitative research in scientometrics and bibliometrics. It provides various routines for importing bibliographic data from 'SCOPUS', 'Clarivate Analytics Web of Science' (<https://www.webofknowledge.com/>), 'Digital Science Dimensions' (<https://www.dimensions.ai/>), 'Cochrane Library' (<https://www.cochranelibrary.com/>), 'Lens' (<https://lens.org>), and 'PubMed' (<https://pubmed.ncbi.nlm.nih.gov/>) databases, performing bibliometric analysis and building networks for co-citation, coupling, scientific collaboration and co-word analysis.
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2025-03-25 |
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r-bibliometrixdata
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It contains some example datasets used in 'bibliometrix'. The data are bibliographic datasets exported from the 'SCOPUS' (<https://scopus.com>) and 'Clarivate Analytics Web of Science' (<https://www.webofscience.com/>) databases. They can be used to test the different features of the package 'bibliometrix' (<https://bibliometrix.org>).
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2025-03-25 |
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r-bib2df
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Parse a BibTeX file to a data.frame to make it accessible for further analysis and visualization.
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2025-03-25 |
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r-bets
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It provides access to and information about the most important Brazilian economic time series - from the Getulio Vargas Foundation <http://portal.fgv.br/en>, the Central Bank of Brazil <http://www.bcb.gov.br> and the Brazilian Institute of Geography and Statistics <http://www.ibge.gov.br>. It also presents tools for managing, analysing (e.g. generating dynamic reports with a complete analysis of a series) and exporting these time series.
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2025-03-25 |
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r-betapart
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Functions to compute pair-wise dissimilarities (distance matrices) and multiple-site dissimilarities, separating the turnover and nestedness-resultant components of taxonomic (incidence and abundance based), functional and phylogenetic beta diversity.
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2025-03-25 |
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r-bergm
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Bayesian analysis for exponential random graph models using advanced computational algorithms. More information can be found at: <https://acaimo.github.io/Bergm/>.
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2025-03-25 |
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r-bestnormalize
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Estimate a suite of normalizing transformations, including a new adaptation of a technique based on ranks which can guarantee normally distributed transformed data if there are no ties: ordered quantile normalization (ORQ). ORQ normalization combines a rank-mapping approach with a shifted logit approximation that allows the transformation to work on data outside the original domain. It is also able to handle new data within the original domain via linear interpolation. The package is built to estimate the best normalizing transformation for a vector consistently and accurately. It implements the Box-Cox transformation, the Yeo-Johnson transformation, three types of Lambert WxF transformations, and the ordered quantile normalization transformation. It estimates the normalization efficacy of other commonly used transformations, and it allows users to specify custom transformations or normalization statistics. Finally, functionality can be integrated into a machine learning workflow via recipes.
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2025-03-25 |
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r-benchmarkme
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public |
Benchmark your CPU and compare against other CPUs. Also provides functions for obtaining system specifications, such as RAM, CPU type, and R version.
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2025-03-25 |
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r-benchmarkmedata
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public |
Crowd sourced benchmarks from running the 'benchmarkme' package.
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2025-03-25 |
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r-bedr
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public |
Genomic regions processing using open-source command line tools such as 'BEDTools', 'BEDOPS' and 'Tabix'. These tools offer scalable and efficient utilities to perform genome arithmetic e.g indexing, formatting and merging. bedr API enhances access to these tools as well as offers additional utilities for genomic regions processing.
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2025-03-25 |
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r-beastjar
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public |
Provides JAR to perform Markov chain Monte Carlo (MCMC) inference using the popular Bayesian Evolutionary Analysis by Sampling Trees 'BEAST' software library of Suchard et al (2018) <doi:10.1093/ve/vey016>. 'BEAST' supports auto-tuning Metropolis-Hastings, slice, Hamiltonian Monte Carlo and Sequential Monte Carlo sampling for a large variety of composable standard and phylogenetic statistical models using high performance computing. By placing the 'BEAST' JAR in this package, we offer an efficient distribution system for 'BEAST' use by other R packages using CRAN.
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2025-03-25 |
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r-bde
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public |
A collection of S4 classes which implements different methods to estimate and deal with densities in bounded domains. That is, densities defined within the interval [lower.limit, upper.limit], where lower.limit and upper.limit are values that can be set by the user.
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2025-03-25 |
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r-bazar
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public |
A collection of miscellaneous functions for copying objects to the clipboard ('Copy'); manipulating strings ('concat', 'mgsub', 'trim', 'verlan'); loading or showing packages ('library_with_dep', 'require_with_dep', 'sessionPackages'); creating or testing for named lists ('nlist', 'as.nlist', 'is.nlist'), formulas ('is.formula'), empty objects ('as.empty', 'is.empty'), whole numbers ('as.wholenumber', 'is.wholenumber'); testing for equality ('almost.equal', 'almost.zero') and computing uniqueness ('almost.unique'); getting modified versions of usual functions ('rle2', 'sumNA'); making a pause or a stop ('pause', 'stopif'); converting into a function ('as.fun'); providing a C like ternary operator ('condition %?% true %:% false'); finding packages and functions ('get_all_pkgs', 'get_all_funs'); and others ('erase', '%nin%', 'unwhich', 'top', 'bot', 'normalize').
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2025-03-25 |
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r-bayesx
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Functions for exploring and visualising estimation results obtained with BayesX, a free software for estimating structured additive regression models (<https://www.uni-goettingen.de/de/bayesx/550513.html>). In addition, functions that allow to read, write and manipulate map objects that are required in spatial analyses performed with BayesX.
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2025-03-25 |
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r-bayestestr
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public |
Provides utilities to describe posterior distributions and Bayesian models. It includes point-estimates such as Maximum A Posteriori (MAP), measures of dispersion (Highest Density Interval - HDI; Kruschke, 2015 <doi:10.1016/C2012-0-00477-2>) and indices used for null-hypothesis testing (such as ROPE percentage, pd and Bayes factors). References: Makowski et al. (2021) <doi:10.21105/joss.01541>.
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2025-03-25 |
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r-bayestools
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public |
Provides tools for conducting Bayesian analyses and Bayesian model averaging (Kass and Raftery, 1995, <doi:10.1080/01621459.1995.10476572>, Hoeting et al., 1999, <doi:10.1214/ss/1009212519>). The package contains functions for creating a wide range of prior distribution objects, mixing posterior samples from 'JAGS' and 'Stan' models, plotting posterior distributions, and etc... The tools for working with prior distribution span from visualization, generating 'JAGS' and 'bridgesampling' syntax to basic functions such as rng, quantile, and distribution functions.
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2025-03-25 |
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r-bayesrules
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Provides datasets and functions used for analysis and visualizations in the Bayes Rules! book (<https://www.bayesrulesbook.com>). The package contains a set of functions that summarize and plot Bayesian models from some conjugate families and another set of functions for evaluation of some Bayesian models.
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2025-03-25 |
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r-batchjobs
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public |
Provides Map, Reduce and Filter variants to generate jobs on batch computing systems like PBS/Torque, LSF, SLURM and Sun Grid Engine. Multicore and SSH systems are also supported. For further details see the project web page.
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2025-03-25 |
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r-bat
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public |
Includes algorithms to assess alpha and beta diversity in all their dimensions (taxonomic, phylogenetic and functional). It allows performing a number of analyses based on species identities/abundances, phylogenetic/functional distances, trees, convex-hulls or kernel density n-dimensional hypervolumes depicting species relationships. Cardoso et al. (2015) <doi:10.1111/2041-210X.12310>.
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2025-03-25 |
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r-batchgetsymbols
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Makes it easy to download financial data from Yahoo Finance <https://finance.yahoo.com/>.
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2025-03-25 |
