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r-simplyagree
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Reliability and agreement analyses often have limited software support. Therefore, this package was created to make agreement and reliability analyses easier for the average researcher. The functions within this package include simple tests of agreement, agreement analysis for nested and replicate data, and provide robust analyses of reliability. In addition, this package contains a set of functions to help when planning studies looking to assess measurement agreement. For robust analyses of agreement, limits of agreement through a bootstrap method can also be calculated.
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2025-03-25 |
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r-survival
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public |
Contains the core survival analysis routines, including definition of Surv objects, Kaplan-Meier and Aalen-Johansen (multi-state) curves, Cox models, and parametric accelerated failure time models.
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2025-03-25 |
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r-shape
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public |
Functions for plotting graphical shapes such as ellipses, circles, cylinders, arrows, ...
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2025-03-25 |
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r-selectiveinference
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public |
New tools for post-selection inference, for use with forward stepwise regression, least angle regression, the lasso, and the many means problem. The lasso function implements Gaussian, logistic and Cox survival models.
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2025-03-25 |
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r-rcpp
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public |
The 'Rcpp' package provides R functions as well as C++ classes which offer a seamless integration of R and C++. Many R data types and objects can be mapped back and forth to C++ equivalents which facilitates both writing of new code as well as easier integration of third-party libraries. Documentation about 'Rcpp' is provided by several vignettes included in this package, via the 'Rcpp Gallery' site at <https://gallery.rcpp.org>, the paper by Eddelbuettel and Francois (2011, <doi:10.18637/jss.v040.i08>), the book by Eddelbuettel (2013, <doi:10.1007/978-1-4614-6868-4>) and the paper by Eddelbuettel and Balamuta (2018, <doi:10.1080/00031305.2017.1375990>); see 'citation("Rcpp")' for details.
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2025-03-25 |
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r-matrix
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A rich hierarchy of matrix classes, including triangular, symmetric, and diagonal matrices, both dense and sparse and with pattern, logical and numeric entries. Numerous methods for and operations on these matrices, using 'LAPACK' and 'SuiteSparse' libraries.
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2025-03-25 |
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r-mass
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Functions and datasets to support Venables and Ripley, "Modern Applied Statistics with S" (4th edition, 2002).
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2025-03-25 |
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r-lattice
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public |
A powerful and elegant high-level data visualization system inspired by Trellis graphics, with an emphasis on multivariate data. Lattice is sufficient for typical graphics needs, and is also flexible enough to handle most nonstandard requirements. See ?Lattice for an introduction.
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2025-03-25 |
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r-iterators
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Support for iterators, which allow a programmer to traverse through all the elements of a vector, list, or other collection of data.
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2025-03-25 |
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r-intervals
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public |
Tools for working with and comparing sets of points and intervals.
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2025-03-25 |
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r-glmnet
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public |
Extremely efficient procedures for fitting the entire lasso or elastic-net regularization path for linear regression, logistic and multinomial regression models, Poisson regression, Cox model, multiple-response Gaussian, and the grouped multinomial regression. There are two new and important additions. The family argument can be a GLM family object, which opens the door to any programmed family. This comes with a modest computational cost, so when the built-in families suffice, they should be used instead. The other novelty is the relax option, which refits each of the active sets in the path unpenalized. The algorithm uses cyclical coordinate descent in a path-wise fashion, as described in the papers listed in the URL below.
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2025-03-25 |
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r-foreach
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public |
Support for the foreach looping construct. Foreach is an idiom that allows for iterating over elements in a collection, without the use of an explicit loop counter. This package in particular is intended to be used for its return value, rather than for its side effects. In that sense, it is similar to the standard lapply function, but doesn't require the evaluation of a function. Using foreach without side effects also facilitates executing the loop in parallel.
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2025-03-25 |
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r-codetools
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public |
Code analysis tools for R.
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2025-03-25 |
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r-coda
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Provides functions for summarizing and plotting the output from Markov Chain Monte Carlo (MCMC) simulations, as well as diagnostic tests of convergence to the equilibrium distribution of the Markov chain.
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2025-03-25 |
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r-adaptmcmc
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public |
Enables sampling from arbitrary distributions if the log density is known up to a constant; a common situation in the context of Bayesian inference. The implemented sampling algorithm was proposed by Vihola (2012) <DOI:10.1007/s11222-011-9269-5> and achieves often a high efficiency by tuning the proposal distributions to a user defined acceptance rate.
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2025-03-25 |
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r-cutpointr
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Estimate cutpoints that optimize a specified metric in binary classification tasks and validate performance using bootstrapping. Some methods for more robust cutpoint estimation and various plotting functions are included.
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2025-03-25 |
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r-ellipsis
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public |
The ellipsis is a powerful tool for extending functions. Unfortunately this power comes at a cost: misspelled arguments will be silently ignored. The ellipsis package provides a collection of functions to catch problems and alert the user.
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2025-03-25 |
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r-roct
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Contains functions in order to estimate diagnostic and prognostic capacities of continuous markers. More precisely, one function concerns the estimation of time-dependent ROC (ROCt) curve, as proposed by Heagerty et al. (2000) <doi:10.1111/j.0006-341X.2000.00337.x>. One function concerns the adaptation of the ROCt theory for studying the capacity of a marker to predict the excess of mortality of a specific population compared to the general population. This last part is based on additive relative survival models and the work of Pohar-Perme et al. (2012) <doi:10.1111/j.1541-0420.2011.01640.x>. We also propose two functions for cut-off estimation in medical decision making by maximizing time-dependent expected utility function. Finally, we propose confounder-adjusted estimators of ROC and ROCt curves by using the Inverse Probability Weighting (IPW) approach. For the confounder-adjusted ROC curve (without censoring), we also proposed the implementation of the estimator based on placement values proposed by Pepe and Cai (2004) <doi:10.1111/j.0006-341X.2004.00200.x>.
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2025-03-25 |
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r-relsurv
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Contains functions for analysing relative survival data, including nonparametric estimators of net (marginal relative) survival, relative survival ratio, crude mortality, methods for fitting and checking additive and multiplicative regression models, transformation approach, methods for dealing with population mortality tables.
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2025-03-25 |
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r-date
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Functions for handling dates.
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2025-03-25 |
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r-pwr
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Power analysis functions along the lines of Cohen (1988).
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2025-03-25 |
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r-calibrationcurves
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Plots calibration curves and computes statistics for assessing calibration performance.
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2025-03-25 |
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r-hmisc
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Contains many functions useful for data analysis, high-level graphics, utility operations, functions for computing sample size and power, importing and annotating datasets, imputing missing values, advanced table making, variable clustering, character string manipulation, conversion of R objects to LaTeX and html code, and recoding variables.
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2025-03-25 |
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r-hdtest
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High dimensional testing procedures on mean, covariance and white noises.
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2025-03-25 |
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r-fastclime
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Provides a method of recovering the precision matrix efficiently and solving for the dantzig selector by applying the parametric simplex method. The computation is based on a linear optimization solver. It also contains a generic LP solver and a parameterized LP solver using parametric simplex method.
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2025-03-25 |
