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r-roxygen2
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Generate your Rd documentation, 'NAMESPACE' file, and collation field using specially formatted comments. Writing documentation in-line with code makes it easier to keep your documentation up-to-date as your requirements change. 'Roxygen2' is inspired by the 'Doxygen' system for C++.
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2025-03-25 |
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r-robustlmm
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A method to fit linear mixed effects models robustly. Robustness is achieved by modification of the scoring equations combined with the Design Adaptive Scale approach.
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2025-03-25 |
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r-purrrlyr
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Some functions at the intersection of 'dplyr' and 'purrr' that formerly lived in 'purrr'.
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2025-03-25 |
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r-nmf
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Provides a framework to perform Non-negative Matrix Factorization (NMF). The package implements a set of already published algorithms and seeding methods, and provides a framework to test, develop and plug new/custom algorithms. Most of the built-in algorithms have been optimized in C++, and the main interface function provides an easy way of performing parallel computations on multicore machines.
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2025-03-25 |
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r-networksis
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Tools to simulate bipartite networks/graphs with the degrees of the nodes fixed and specified. 'networksis' is part of the 'statnet' suite of packages for network analysis.
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2025-03-25 |
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r-mlr
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Interface to a large number of classification and regression techniques, including machine-readable parameter descriptions. There is also an experimental extension for survival analysis, clustering and general, example-specific cost-sensitive learning. Generic resampling, including cross-validation, bootstrapping and subsampling. Hyperparameter tuning with modern optimization techniques, for single- and multi-objective problems. Filter and wrapper methods for feature selection. Extension of basic learners with additional operations common in machine learning, also allowing for easy nested resampling. Most operations can be parallelized.
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2025-03-25 |
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r-joinerml
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Fits the joint model proposed by Henderson and colleagues (2000) <doi:10.1093/biostatistics/1.4.465>, but extended to the case of multiple continuous longitudinal measures. The time-to-event data is modelled using a Cox proportional hazards regression model with time-varying covariates. The multiple longitudinal outcomes are modelled using a multivariate version of the Laird and Ware linear mixed model. The association is captured by a multivariate latent Gaussian process. The model is estimated using a Monte Carlo Expectation Maximization algorithm. This project is funded by the Medical Research Council (Grant number MR/M013227/1).
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2025-03-25 |
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r-ggforce
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The aim of 'ggplot2' is to aid in visual data investigations. This focus has led to a lack of facilities for composing specialised plots. 'ggforce' aims to be a collection of mainly new stats and geoms that fills this gap. All additional functionality is aimed to come through the official extension system so using 'ggforce' should be a stable experience.
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2025-03-25 |
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r-degreenet
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Likelihood-based inference for skewed count distributions used in network modeling. "degreenet" is a part of the "statnet" suite of packages for network analysis.
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2025-03-25 |
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r-vcdextra
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Provides additional data sets, methods and documentation to complement the 'vcd' package for Visualizing Categorical Data and the 'gnm' package for Generalized Nonlinear Models. In particular, 'vcdExtra' extends mosaic, assoc and sieve plots from 'vcd' to handle 'glm()' and 'gnm()' models and adds a 3D version in 'mosaic3d'. Additionally, methods are provided for comparing and visualizing lists of 'glm' and 'loglm' objects. This package is now a support package for the book, "Discrete Data Analysis with R" by Michael Friendly and David Meyer.
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2025-03-25 |
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r-tufte
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Provides R Markdown output formats to use Tufte styles for PDF and HTML output.
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2025-03-25 |
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r-tensorflow
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Interface to 'TensorFlow' <https://www.tensorflow.org/>, an open source software library for numerical computation using data flow graphs. Nodes in the graph represent mathematical operations, while the graph edges represent the multidimensional data arrays (tensors) communicated between them. The flexible architecture allows you to deploy computation to one or more 'CPUs' or 'GPUs' in a desktop, server, or mobile device with a single 'API'. 'TensorFlow' was originally developed by researchers and engineers working on the Google Brain Team within Google's Machine Intelligence research organization for the purposes of conducting machine learning and deep neural networks research, but the system is general enough to be applicable in a wide variety of other domains as well.
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2025-03-25 |
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r-rticles
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public |
A suite of custom R Markdown formats and templates for authoring journal articles and conference submissions.
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2025-03-25 |
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r-rematch2
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Wrappers on 'regexpr' and 'gregexpr' to return the match results in tidy data frames.
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2025-03-25 |
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r-rarpack
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Previously an R wrapper of the 'ARPACK' library <http://www.caam.rice.edu/software/ARPACK/>, and now a shell of the R package 'RSpectra', an R interface to the 'Spectra' library <http://yixuan.cos.name/spectra/> for solving large scale eigenvalue/vector problems. The current version of 'rARPACK' simply imports and exports the functions provided by 'RSpectra'. New users of 'rARPACK' are advised to switch to the 'RSpectra' package.
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2025-03-25 |
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r-psychotree
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Recursive partitioning based on psychometric models, employing the general MOB algorithm (from package partykit) to obtain Bradley-Terry trees, Rasch trees, rating scale and partial credit trees, and MPT trees.
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2025-03-25 |
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r-pre
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Derives prediction rule ensembles (PREs). Largely follows the procedure for deriving PREs as described in Friedman & Popescu (2008; <DOI:10.1214/07-AOAS148>), with adjustments and improvements. The main function pre() derives prediction rule ensembles consisting of rules and/or linear terms for continuous, binary, count, multinomial, and multivariate continuous responses. Function gpe() derives generalized prediction ensembles, consisting of rules, hinge and linear functions of the predictor variables.
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2025-03-25 |
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r-plumber
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public |
Gives the ability to automatically generate and serve an HTTP API from R functions using the annotations in the R documentation around your functions.
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2025-03-25 |
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r-pinp
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public |
A 'PNAS'-alike style for 'rmarkdown', derived from the 'Proceedings of the National Academy of Sciences of the United States of America' ('PNAS', see <https://www.pnas.org>) 'LaTeX' style, and adapted for use with 'markdown' and 'pandoc'.
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2025-03-25 |
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r-mlmrev
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Data and examples from a multilevel modelling software review as well as other well-known data sets from the multilevel modelling literature.
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2025-03-25 |
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r-memss
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public |
Data sets and sample analyses from Pinheiro and Bates, "Mixed-effects Models in S and S-PLUS" (Springer, 2000).
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2025-03-25 |
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r-gamm4
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Estimate generalized additive mixed models via a version of function gamm() from 'mgcv', using 'lme4' for estimation.
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2025-03-25 |
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r-umap
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Uniform manifold approximation and projection is a technique for dimension reduction. The algorithm was described by McInnes and Healy (2018) in <arXiv:1802.03426>. This package provides an interface for two implementations. One is written from scratch, including components for nearest-neighbor search and for embedding. The second implementation is a wrapper for 'python' package 'umap-learn' (requires separate installation, see vignette for more details).
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2025-03-25 |
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r-tam
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Includes marginal maximum likelihood estimation and joint maximum likelihood estimation for unidimensional and multidimensional item response models. The package functionality covers the Rasch model, 2PL model, 3PL model, generalized partial credit model, multi-faceted Rasch model, nominal item response model, structured latent class model, mixture distribution IRT models, and located latent class models. Latent regression models and plausible value imputation are also supported. For details see Adams, Wilson and Wang, 1997 <doi:10.1177/0146621697211001>, Adams, Wilson and Wu, 1997 <doi:10.3102/10769986022001047>, Formann, 1982 <doi:10.1002/bimj.4710240209>, Formann, 1992 <doi:10.1080/01621459.1992.10475229>.
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2025-03-25 |
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r-np
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Nonparametric (and semiparametric) kernel methods that seamlessly handle a mix of continuous, unordered, and ordered factor data types. We would like to gratefully acknowledge support from the Natural Sciences and Engineering Research Council of Canada (NSERC, <http://www.nserc-crsng.gc.ca>), the Social Sciences and Humanities Research Council of Canada (SSHRC, <http://www.sshrc-crsh.gc.ca>), and the Shared Hierarchical Academic Research Computing Network (SHARCNET, <http://www.sharcnet.ca>).
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2025-03-25 |
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r-mirt
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Analysis of dichotomous and polytomous response data using unidimensional and multidimensional latent trait models under the Item Response Theory paradigm (Chalmers (2012) <doi:10.18637/jss.v048.i06>). Exploratory and confirmatory models can be estimated with quadrature (EM) or stochastic (MHRM) methods. Confirmatory bi-factor and two-tier analyses are available for modeling item testlets. Multiple group analysis and mixed effects designs also are available for detecting differential item and test functioning as well as modeling item and person covariates. Finally, latent class models such as the DINA, DINO, multidimensional latent class, and several other discrete latent variable models, including mixture and zero-inflated response models, are supported.
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2025-03-25 |
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r-mboost
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public |
Functional gradient descent algorithm (boosting) for optimizing general risk functions utilizing component-wise (penalised) least squares estimates or regression trees as base-learners for fitting generalized linear, additive and interaction models to potentially high-dimensional data.
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2025-03-25 |
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r-hipread
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Read hierarchical fixed width files like those commonly used by many census data providers. Also allows for reading of data in chunks, and reading 'gzipped' files without storing the full file in memory.
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2025-03-25 |
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r-gstat
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Variogram modelling; simple, ordinary and universal point or block (co)kriging; spatio-temporal kriging; sequential Gaussian or indicator (co)simulation; variogram and variogram map plotting utility functions; supports sf and stars.
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2025-03-25 |
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r-feather
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Read and write feather files, a lightweight binary columnar data store designed for maximum speed.
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2025-03-25 |
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r-epi
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Functions for demographic and epidemiological analysis in the Lexis diagram, i.e. register and cohort follow-up data, in particular representation, manipulation and simulation of multistate data - the Lexis suite of functions, which includes interfaces to 'mstate', 'etm' and 'cmprsk' packages. Also contains functions for Age-Period-Cohort and Lee-Carter modeling and a function for interval censored data and some useful functions for tabulation and plotting, as well as a number of epidemiological data sets.
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2025-03-25 |
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r-wordcloud2
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A fast visualization tool for creating wordcloud by using 'wordcloud2.js'. 'wordcloud2.js' is a JavaScript library to create wordle presentation on 2D canvas or HTML <https://timdream.org/wordcloud2.js/>.
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2025-03-25 |
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r-webmockr
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Stubbing and setting expectations on 'HTTP' requests. Includes tools for stubbing 'HTTP' requests, including expected request conditions and response conditions. Match on 'HTTP' method, query parameters, request body, headers and more. Can be used for unit tests or outside of a testing context.
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2025-03-25 |
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r-verification
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Utilities for verifying discrete, continuous and probabilistic forecasts, and forecasts expressed as parametric distributions are included.
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2025-03-25 |
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r-tsa
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Contains R functions and datasets detailed in the book "Time Series Analysis with Applications in R (second edition)" by Jonathan Cryer and Kung-Sik Chan.
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2025-03-25 |
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r-tfruns
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Create and manage unique directories for each 'TensorFlow' training run. Provides a unique, time stamped directory for each run along with functions to retrieve the directory of the latest run or latest several runs.
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2025-03-25 |
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r-stubthat
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Create stubs of functions for use while testing.
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2025-03-25 |
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r-sparkline
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Include interactive sparkline charts <http://omnipotent.net/jquery.sparkline> in all R contexts with the convenience of 'htmlwidgets'.
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2025-03-25 |
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r-spacetime
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Classes and methods for spatio-temporal data, including space-time regular lattices, sparse lattices, irregular data, and trajectories; utility functions for plotting data as map sequences (lattice or animation) or multiple time series; methods for spatial and temporal selection and subsetting, as well as for spatial/temporal/spatio-temporal matching or aggregation, retrieving coordinates, print, summary, etc.
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2025-03-25 |
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r-r.devices
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Functions for creating plots and image files in a unified way regardless of output format (EPS, PDF, PNG, SVG, TIFF, WMF, etc.). Default device options as well as scales and aspect ratios are controlled in a uniform way across all device types. Switching output format requires minimal changes in code. This package is ideal for large-scale batch processing, because it will never leave open graphics devices or incomplete image files behind, even on errors or user interrupts.
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2025-03-25 |
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r-rastervis
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Methods for enhanced visualization and interaction with raster data. It implements visualization methods for quantitative data and categorical data, both for univariate and multivariate rasters. It also provides methods to display spatiotemporal rasters, and vector fields. See the website for examples.
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2025-03-25 |
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r-parallelmap
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Unified parallelization framework for multiple back-end, designed for internal package and interactive usage. The main operation is a parallel "map" over lists. Supports local, multicore, mpi and BatchJobs mode. Allows "tagging" of the parallel operation with a level name that can be later selected by the user to switch on parallel execution for exactly this operation.
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2025-03-25 |
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r-orcutt
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Solve first order autocorrelation problems using an iterative method. This procedure estimates both autocorrelation and beta coefficients recursively until we reach the convergence (8th decimal as default). The residuals are computed after estimating Beta using EGLS approach and Rho is estimated using the previous residuals.
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2025-03-25 |
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r-netswan
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A set of functions for studying network robustness, resilience and vulnerability.
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2025-03-25 |
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r-multiwayvcov
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Exports two functions implementing multi-way clustering using the method suggested by Cameron, Gelbach, & Miller (2011) and cluster (or block) bootstrapping for estimating variance-covariance matrices. Normal one and two-way clustering matches the results of other common statistical packages. Missing values are handled transparently and rudimentary parallelization support is provided.
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2025-03-25 |
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r-mockery
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The two main functionalities of this package are creating mock objects (functions) and selectively intercepting calls to a given function that originate in some other function. It can be used with any testing framework available for R. Mock objects can be injected with either this package's own stub() function or a similar with_mock() facility present in the testthat package.
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2025-03-25 |
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r-mlt
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Likelihood-based estimation of conditional transformation models via the most likely transformation approach described in Hothorn et al. (2018) <DOI:10.1111/sjos.12291>.
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2025-03-25 |
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r-grpregoverlap
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Fit the regularization path of linear, logistic or Cox models with overlapping grouped covariates based on the latent group lasso approach. Latent group MCP/SCAD as well as bi-level selection methods, namely the group exponential lasso and the composite MCP are also available. This package serves as an extension of R package 'grpreg' (by Dr. Patrick Breheny <[email protected]>) for grouped variable selection involving overlaps between groups.
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2025-03-25 |
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r-gmm
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It is a complete suite to estimate models based on moment conditions. It includes the two step Generalized method of moments (Hansen 1982; <doi:10.2307/1912775>), the iterated GMM and continuous updated estimator (Hansen, Eaton and Yaron 1996; <doi:10.2307/1392442>) and several methods that belong to the Generalized Empirical Likelihood family of estimators (Smith 1997; <doi:10.1111/j.0013-0133.1997.174.x>, Kitamura 1997; <doi:10.1214/aos/1069362388>, Newey and Smith 2004; <doi:10.1111/j.1468-0262.2004.00482.x>, and Anatolyev 2005 <doi:10.1111/j.1468-0262.2005.00601.x>).
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2025-03-25 |
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r-glmnetutils
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Provides a formula interface for the 'glmnet' package for elasticnet regression, a method for cross-validating the alpha parameter, and other quality-of-life tools.
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2025-03-25 |
