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r-r6ds
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Provides reference classes implementing some useful data structures. The package implements these data structures by using the reference class R6. Therefore, the classes of the data structures are also reference classes which means that their instances are passed by reference. The implemented data structures include stack, queue, double-ended queue, doubly linked list, set, dictionary and binary search tree. See for example <https://en.wikipedia.org/wiki/Data_structure> for more information about the data structures.
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2025-03-25 |
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r-r62s3
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After defining an R6 class, R62S3 is used to automatically generate optional S3/S4 generics and methods for dispatch. Also allows piping for R6 objects.
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2025-03-25 |
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r-r4couchdb
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Provides a collection of functions for basic database and document management operations such as add, get, list access or delete. Every cdbFunction() gets and returns a list() containing the connection setup. Such a list can be generated by cdbIni().
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2025-03-25 |
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r-r3port
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public |
Create and combine HTML and PDF reports from within R. Possibility to design tables and listings for reporting and also include R plots.
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2025-03-25 |
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r-r2winbugs
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Invoke a 'BUGS' model in 'OpenBUGS' or 'WinBUGS', a class "bugs" for 'BUGS' results and functions to work with that class. Function write.model() allows a 'BUGS' model file to be written. The class and auxiliary functions could be used with other MCMC programs, including 'JAGS'.
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2025-03-25 |
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r-r2stl
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r2stl, R package for visualizing data using a 3D printer Package r2stl converts R data to STL (stereolithography) files that can be used to feed a 3-dimensional printer. The 3-dimensional output from an R function can be materialized into a solid surface in a plastic material, therefore allowing more detailed examination. There are many possible uses for this new R tool, such as to examine mathematical expressions with very irregular shapes, to aid teaching people with impaired vision, to create raised relief maps from digital elevation maps (DEMs), to bridge the gap between mathematical tools and rapid prototyping, and many more. Ian Walker created the function "r2stl" and Jose' Gama assembled the package.
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2025-03-25 |
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r-r2pmml
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public |
R wrapper for the JPMML-R library <https://github.com/jpmml/jpmml-r>, which converts R models to Predictive Model Markup Language (PMML).
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2025-03-25 |
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r-r2openbugs
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public |
Using this package, it is possible to call a BUGS model, summarize inferences and convergence in a table and graph, and save the simulations in arrays for easy access in R.
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2025-03-25 |
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r-r2html
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public |
Includes HTML function and methods to write in an HTML file. Thus, making HTML reports is easy. Includes a function that allows redirection on the fly, which appears to be very useful for teaching purpose, as the student can keep a copy of the produced output to keep all that he did during the course. Package comes with a vignette describing how to write HTML reports for statistical analysis. Finally, a driver for 'Sweave' allows to parse HTML flat files containing R code and to automatically write the corresponding outputs (tables and graphs).
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2025-03-25 |
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r-r2dt
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Some heavily used base R functions are reconstructed to also be compliant to data.table objects. Also, some general helper functions that could be of interest for working with data.table objects are included.
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2025-03-25 |
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r-r2dgc
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Provides functions for aligning 2D gas chromatography mass spectrometry derived metabolite peaks obtained from primary processing and generates an alignment table that allows for a comparison of common peaks across samples and metabolite identification. Publication describing the package in detail is available at the following citation: Ryne C. Ramaker, Emily Gordon, Sara J. Cooper (2017) <doi:10.1101/179168>.
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2025-03-25 |
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r-r2d2
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Generic functions to analyze the distribution of two continuous variables: 'conf2d' to calculate a smooth empirical confidence region, and 'freq2d' to calculate a frequency distribution.
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2025-03-25 |
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r-r2beat
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Multivariate optimal allocation for different domains in one and two stages stratified sample design. 'R2BEAT' extends the Neyman (1934) – Tschuprow (1923) allocation method to the case of several variables, adopting a generalization of the Bethel’s proposal (1989). 'R2BEAT' develops this methodology but, moreover, it allows to determine the sample allocation in the multivariate and multi-domains case of estimates for two-stage stratified samples. It also allows to perform both Primary Stage Units and Secondary Stage Units selection. This package requires the availability of 'ReGenesees', that can be installed from <https://github.com/DiegoZardetto/ReGenesees>.
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2025-03-25 |
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r-r2admb
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public |
A series of functions to call 'AD Model Builder' (i.e., compile and run models) from within R, read the results back into R as 'admb' objects, and provide standard accessors (i.e. coef(), vcov(), etc.)
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2025-03-25 |
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r-r1magic
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public |
Utilities for sparse signal recovery suitable for compressed sensing. L1, L2 and TV penalties, DFT basis matrix, simple sparse signal generator, mutual cumulative coherence between two matrices and examples, Lp complex norm, scaling back regression coefficients.
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2025-03-25 |
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r-r0
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Estimation of reproduction numbers for disease outbreak, based on incidence data. The R0 package implements several documented methods. It is therefore possible to compare estimations according to the methods used. Depending on the methods requested by user, basic reproduction number (commonly denoted as R0) or real-time reproduction number (referred to as R(t)) is computed, along with a 95% Confidence Interval. Plotting outputs will give different graphs depending on the methods requested : basic reproductive number estimations will only show the epidemic curve (collected data) and an adjusted model, whereas real-time methods will also show the R(t) variations throughout the outbreak time period. Sensitivity analysis tools are also provided, and allow for investigating effects of varying Generation Time distribution or time window on estimates.
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2025-03-25 |
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r-quran
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Full text, in data frames containing one row per verse, of the Qur'an in Arabic (with and without vowels) and in English (the Yusuf Ali and Saheeh International translations), formatted to be convenient for text analysis.
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2025-03-25 |
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r-quietr
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public |
Simplifies output suppression logic in R packages, as it's common to develop some form of it in R. 'quietR' intends to simplify that problem and allow a set of simple toggle functions to be used to suppress console output.
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2025-03-25 |
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r-quiddich
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Provides tools for an automated identification of diagnostic molecular characters, i.e. such columns in a given nucleotide or amino acid alignment that allow to distinguish taxa from each other. These characters can then be used to complement the formal descriptions of the taxa, which are often based on morphological and anatomical features. Especially for morphologically cryptic species, this will be helpful. QUIDDICH distinguishes between four different types of diagnostic characters. For more information, see "Kuehn, A.L., Haase, M. 2019. QUIDDICH: QUick IDentification of DIagnostic CHaracters."
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2025-03-25 |
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r-queueing
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It provides versatile tools for analysis of birth and death based Markovian Queueing Models and Single and Multiclass Product-Form Queueing Networks. It implements M/M/1, M/M/c, M/M/Infinite, M/M/1/K, M/M/c/K, M/M/c/c, M/M/1/K/K, M/M/c/K/K, M/M/c/K/m, M/M/Infinite/K/K, Multiple Channel Open Jackson Networks, Multiple Channel Closed Jackson Networks, Single Channel Multiple Class Open Networks, Single Channel Multiple Class Closed Networks and Single Channel Multiple Class Mixed Networks. Also it provides a B-Erlang, C-Erlang and Engset calculators. This work is dedicated to the memory of D. Sixto Rios Insua.
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2025-03-25 |
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r-queryparser
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Translate 'SQL' 'SELECT' statements into lists of 'R' expressions.
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2025-03-25 |
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r-quclu
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Various quantile-based clustering algorithms: algorithm CU (Common theta and Unscaled variables), algorithm CS (Common theta and Scaled variables through lambda_j), algorithm VU (Variable-wise theta_j and Unscaled variables) and algorithm VW (Variable-wise theta_j and Scaled variables through lambda_j). Hennig, C., Viroli, C., Anderlucci, L. (2019) "Quantile-based clustering." Electronic Journal of Statistics. 13 (2) 4849 - 4883 <doi:10.1214/19-EJS1640>.
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2025-03-25 |
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r-quantumops
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Contains basic structures and operations used frequently in quantum computing. Intended to be a convenient tool to help learn quantum mechanics and algorithms. Can create arbitrarily sized kets and bras and implements quantum gates, inner products, and tensor products. Creates arbitrarily controlled versions of all gates and can simulate complete or partial measurements of kets. Has functionality to convert functions into equivalent quantum gates and model quantum noise. Includes larger applications, such as Steane error correction <DOI:10.1103/physrevlett.77.793>, Quantum Fourier Transform and Shor's algorithm (Shor 1999), Grover's algorithm (1996), Quantum Approximation Optimization Algorithm (QAOA) (Farhi, Goldstone, and Gutmann 2014) <arXiv:1411.4028>, and a variational quantum classifier (Schuld 2018) <arXiv:1804.00633>. Can be used with the gridsynth algorithm <arXiv:1212.6253> to perform decomposition into the Clifford+T set.
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2025-03-25 |
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r-quantreggrowth
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Fits non-crossing regression quantiles as a function of linear covariates and multiple smooth terms, including varying coefficients, via B-splines with L1-norm difference penalties. Random intercepts and variable selection are allowed via the lasso penalties. The smoothing parameters are estimated as part of the model fitting, see Muggeo and others (2021) <doi:10.1177/1471082X20929802>. Monotonicity and concavity constraints on the fitted curves are allowed, see Muggeo and others (2013) <doi:10.1007/s10651-012-0232-1>, and also <doi:10.13140/RG.2.2.12924.85122> or <doi:10.13140/RG.2.2.29306.21445> some code examples.
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2025-03-25 |
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r-quantpsyc
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Contains tools useful for data screening, testing moderation (Cohen et. al. 2003)<doi:10.4324/9780203774441>, mediation (MacKinnon et. al. 2002)<doi:10.1037/1082-989x.7.1.83> and estimating power (Murphy & Myors 2014)<ISBN:9781315773155>.
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2025-03-25 |
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r-quantnorm
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Modifies the distance matrix obtained from data with batch effects, so as to improve the performance of sample pattern detection, such as clustering, dimension reduction, and construction of networks between subjects. The method has been published in Bioinformatics (Fei et al, 2018, <doi:10.1093/bioinformatics/bty117>). Also available on 'GitHub' <https://github.com/tengfei-emory/QuantNorm>.
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2025-03-25 |
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r-quantilenpci
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Based on Alan D. Hutson (1999) <doi:10.1080/02664769922458>, "Calculating nonparametric confidence intervals for quantiles using fractional order statistics", Journal of Applied Statistics, 26:3, 343-353.
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2025-03-25 |
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r-quantilegrader
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Implementation of the food safety restaurant grading system adopted by Public Health - Seattle & King County (see Ashwood, Z.C., Elias, B., and Ho. D.E. "Improving the Reliability of Food Safety Disclosure: A Quantile Adjusted Restaurant Grading System for Seattle-King County" (working paper)). As reported in the accompanying paper, this package allows jurisdictions to easily implement refinements that address common challenges with unadjusted grading systems. First, in contrast to unadjusted grading, where the most recent single routine inspection is the primary determinant of a grade, grading inputs are allowed to be flexible. For instance, it is straightforward to base the grade on average inspection scores across multiple inspection cycles. Second, the package can identify quantile cutoffs by inputting substantively meaningful regulatory thresholds (e.g., the proportion of establishments receiving sufficient violation points to warrant a return visit). Third, the quantile adjustment equalizes the proportion of establishments in a flexible number of grading categories (e.g., A/B/C) across areas (e.g., ZIP codes, inspector areas) to account for inspector differences. Fourth, the package implements a refined quantile adjustment that addresses two limitations with the stats::quantile() function when applied to inspection score datasets with large numbers of score ties. The quantile adjustment algorithm iterates over quantiles until, over all restaurants in all areas, grading proportions are within a tolerance of desired global proportions. In addition the package allows a modified definition of "quantile" from "Nearest Rank". Instead of requiring that at least p[1]% of restaurants receive the top grade and at least (p[1]+p[2])% of restaurants receive the top or second best grade for quantiles p, the algorithm searches for cutoffs so that as close as possible p[1]% of restaurants receive the top grade, and as close as possible to p[2]% of restaurants receive the second top grade.
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2025-03-25 |
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r-quantileda
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public |
Code for centroid, median and quantile classifiers.
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2025-03-25 |
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r-quandl
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public |
Functions for interacting directly with the Quandl API to offer data in a number of formats usable in R, downloading a zip with all data from a Quandl database, and the ability to search. This R package uses the Quandl API. For more information go to <https://docs.quandl.com>. For more help on the package itself go to <https://www.quandl.com/tools/r>.
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2025-03-25 |
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r-qualvar
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Implements indices of qualitative variation proposed by Wilcox (1973).
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2025-03-25 |
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r-qualci
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Exact one-sided p-values and confidence intervals for an outcome variable defined on an interval measurement scale with only qualitative and ordinal information available.
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2025-03-25 |
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r-quadprogxt
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Extends the quadprog package to solve quadratic programs with absolute value constraints and absolute values in the objective function.
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2025-03-25 |
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r-qtldesign
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Tools for the design of QTL experiments
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2025-03-25 |
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r-qtlbook
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Datasets for the book, A Guide to QTL Mapping with R/qtl. Broman and Sen (2009) <doi:10.1007/978-0-387-92125-9>.
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2025-03-25 |
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r-qsardata
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public |
Molecular descriptors and outcomes for several public domain data sets
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2025-03-25 |
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r-qrsvm
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Quantile Regression (QR) using Support Vector Machines under the Pinball-Loss. Estimation is based on "Nonparametric Quantile Regression" by I. Takeuchi, Q.V.Le , T. Sears, A.J.Smola (2004). Implementation relies on 'quadprog' package, package 'kernlab' Kernelfunctions and package 'Matrix' nearPD to find next Positive definite Kernelmatrix. Package estimates quantiles individually but an Implementation of non crossing constraints coming soon. Function multqrsvm() now supports parallel backend for faster fitting.
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2025-03-25 |
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r-qrnn
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Fit quantile regression neural network models with optional left censoring, partial monotonicity constraints, generalized additive model constraints, and the ability to fit multiple non-crossing quantile functions following Cannon (2011) <doi:10.1016/j.cageo.2010.07.005> and Cannon (2018) <doi:10.1007/s00477-018-1573-6>.
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2025-03-25 |
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r-qrmix
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Implements the robust algorithm for fitting finite mixture models based on quantile regression proposed by Emir et al., 2017 (unpublished).
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2025-03-25 |
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r-qrmdata
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Various data sets (stocks, stock indices, constituent data, FX, zero-coupon bond yield curves, volatility, commodities) for Quantitative Risk Management practice.
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2025-03-25 |
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r-qrcode
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Create QRcode in R.
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2025-03-25 |
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r-qrank
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A Quantile Rank-score based test for the identification of expression quantitative trait loci.
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2025-03-25 |
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r-qrage
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Tools that create D3 JavaScript force directed graph from R. D3 JavaScript was created by Michael Bostock. See http://d3js.org/ and, more specifically for Force Directed Graph https://github.com/mbostock/d3/wiki/Force-Layout.
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2025-03-25 |
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r-qqvases
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Presents an explanatory animation of normal quantile-quantile plots based on a water-filling analogy. The animation presents a normal QQ plot as the parametric plot of the water levels in vases defined by two distributions. The distributions decorate the axes in the normal QQ plot and are optionally shown as vases adjacent to the plot. The package draws QQ plots for several distributions, either as samples or continuous functions.
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2025-03-25 |
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r-qqperm
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Provides users the necessary utility functions to generate permutation-based QQ plots and also estimate inflation factor based on the empirical NULL distribution. While it has general utility, it is particularly helpful when the skewness of the Fisher's Exact test in sparse data situations with imbalanced case-control sample sizes renders the reliance on the uniform chi-square expected distribution inappropriate.
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2025-03-25 |
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r-qqman
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Create Q-Q and manhattan plots for GWAS data from PLINK results.
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2025-03-25 |
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r-qmrparser
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Basic functions for building parsers, with an application to PC-AXIS format files.
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2025-03-25 |
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r-qlearning
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Implements Q-Learning, a model-free form of reinforcement learning, described in work by Strehl, Li, Wiewiora, Langford & Littman (2006) <doi:10.1145/1143844.1143955>.
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2025-03-25 |
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r-qlearn
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Functions to implement Q-learning for estimating optimal dynamic treatment regimes from two stage sequentially randomized trials, and to perform inference via m-out-of-n bootstrap for parameters indexing the optimal regime.
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2025-03-25 |
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r-qkerntool
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Nonlinear machine learning tool for classification, clustering and dimensionality reduction. It integrates 12 q-kernel functions and 15 conditional negative definite kernel functions and includes the q-kernel and conditional negative definite kernel version of density-based spatial clustering of applications with noise, spectral clustering, generalized discriminant analysis, principal component analysis, multidimensional scaling, locally linear embedding, sammon's mapping and t-Distributed stochastic neighbor embedding.
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2025-03-25 |
