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r-bayesloglin
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public |
The function MC3() searches for log-linear models with the highest posterior probability. The function gibbsSampler() is a blocked Gibbs sampler for sampling from the posterior distribution of the log-linear parameters. The functions findPostMean() and findPostCov() compute the posterior mean and covariance matrix for decomposable models which, for these models, is available in closed form.
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2023-06-16 |
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r-bbo
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This package provides an R implementation of Biogeography-Based Optimization (BBO), originally invented by Prof. Dan Simon, Cleveland State University, Ohio. This method is an application of the concept of biogeography, a study of the geographical distribution of biological organisms, to optimization problems. More information about this method can be found here: http://academic.csuohio.edu/simond/bbo/.
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2023-06-16 |
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r-bayesvalidate
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BayesValidate implements the software validation method described in the paper "Validation of Software for Bayesian Models using Posterior Quantiles" (Cook, Gelman, and Rubin, 2005). It inputs a function to perform Bayesian inference as well as functions to generate data from the Bayesian model being fit, and repeatedly generates and analyzes data to check that the Bayesian inference program works properly.
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2023-06-16 |
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r-bayhaz
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public |
A suite of R functions for Bayesian estimation of smooth hazard rates via Compound Poisson Process (CPP) and Bayesian Penalized Spline (BPS) priors.
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2023-06-16 |
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r-aws.sns
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public |
A simple client package for the Amazon Web Services ('AWS') Simple Notification Service ('SNS') 'API' <https://aws.amazon.com/sns/>.
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2023-06-16 |
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r-aws.ses
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public |
A simple client package for the Amazon Web Services (AWS) Simple Email Service (SES) <http://aws.amazon.com/ses/> REST API.
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2023-06-16 |
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r-bayessae
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Provides a variety of methods from Rao (2003, ISBN:0-471-41374-7) and some other research articles to deal with several specific small area area- level models in Bayesian framework. Models provided range from the basic Fay-Herriot model to its improvement such as You-Chapman models, unmatched models, spatial models and so on. Different types of priors for specific parameters could be chosen to obtain MCMC posterior draws. The main sampling function is written in C with GSL lab so as to facilitate the computation. Model internal checking and model comparison criteria are also involved.
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2023-06-16 |
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r-bbmm
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The model provides an empirical estimate of a movement path using discrete location data obtained at relatively short time intervals.
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2023-06-16 |
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r-aws.sqs
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public |
A simple client package for the Amazon Web Services ('AWS') Simple Queue Service ('SQS') <https://aws.amazon.com/sqs/> 'API'.
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2023-06-16 |
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r-bayespiecewiseicar
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Fits a piecewise exponential hazard to survival data using a Hierarchical Bayesian model with an Intrinsic Conditional Autoregressive formulation for the spatial dependency in the hazard rates for each piece. This function uses Metropolis- Hastings-Green MCMC to allow the number of split points to vary. This function outputs graphics that display the histogram of the number of split points and the trace plots of the hierarchical parameters. The function outputs a list that contains the posterior samples for the number of split points, the location of the split points, and the log hazard rates corresponding to these splits. Additionally, this outputs the posterior samples of the two hierarchical parameters, Mu and Sigma^2.
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2023-06-16 |
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r-bbemkr
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public |
Bayesian bandwidth estimation for Nadaraya-Watson type multivariate kernel regression with Gaussian error density
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2023-06-16 |
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r-bbefkr
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Estimating optimal bandwidths for the regression mean function approximated by the functional Nadaraya-Watson estimator and the error density approximated by a kernel density of residuals simultaneously in a scalar-on-function regression. As a by-product of Markov chain Monte Carlo, the optimal choice of semi-metric is selected based on largest marginal likelihood.
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2023-06-16 |
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r-awr.athena
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'RJDBC' based 'DBI' driver to Amazon Athena, which is an interactive query service to analyze data in Amazon 'S3' using standard 'SQL'.
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2023-06-16 |
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r-basix
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public |
BASIX provides some efficient C/C++ implementations to speed up calculations in R.
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2023-06-16 |
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r-autovarcore
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Automatically find the best vector autoregression models and networks for a given time series data set. 'AutovarCore' evaluates eight kinds of models: models with and without log transforming the data, lag 1 and lag 2 models, and models with and without weekday dummy variables. For each of these 8 model configurations, 'AutovarCore' evaluates all possible combinations for including outlier dummies (at 2.5x the standard deviation of the residuals) and retains the best model. Model evaluation includes the Eigenvalue stability test and a configurable set of residual tests. These eight models are further reduced to four models because 'AutovarCore' determines whether adding weekday dummies improves the model fit.
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2023-06-16 |
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r-apsimbatch
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public |
Run APSIM in Batch mode
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2023-06-16 |
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r-allpossiblespellings
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public |
Contains functions possSpells.fnc and batch.possSpells.fnc.
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2023-06-16 |
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r-badgecreatr
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public |
Tired of copy and pasting almost identical markdown for badges in every new R-package that you create, on Github or other code-sharing sites? This package allows you to easily paste badges. If you want to, it will also search your DESCRIPTION file and extract the package name, license, R-version, and current projectversion and transform that into badges. It will also search for a ".travis.yml" file and create a "Travis"" badge, if you use "Codecov.io" to check your code coverage after a "Travis" build this package will also build a "Codecov.io"-badge. All the badges can be placed individually or can be placed below the top "YAML"" content of your "RMarkdown file" (Readme.Rmd) or "README.md" file. Currently creates badges for Projectstatus ("Repostatus.org"), license Travis Build Status, Codecov, Minimal R version, CRAN status, CRAN downloads, Github stars and forks, Package rank, rdocumentation, current version of your package and last change of "README.Rmd".
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2023-06-16 |
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r-awsjavasdk
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Provides boilerplate access to all of the classes included in the Amazon Web Services ('AWS') Java Software Development Kit (SDK) via package:'rJava'. According to Amazon, the 'SDK helps take the complexity out of coding by providing Java APIs for many AWS services including Amazon S3, Amazon EC2, DynamoDB, and more'. You can read more about the included Java code on Amazon's website: <https://aws.amazon.com/sdk-for-java/>.
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2023-06-16 |
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r-atmray
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public |
Calculates acoustic traveltimes and ray paths in 1-D, linear atmospheres. Later versions will support arbitrary 1-D atmospheric models, such as radiosonde measurements and standard reference atmospheres.
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2023-06-16 |
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r-aml
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This package implements the adaptive mixed lasso (AML) method proposed by Wang et al.(2011). AML applies adaptive lasso penalty to a large number of predictors, thus producing a sparse model, while accounting for the population structure in the linear mixed model framework. The package here is primarily designed for application to genome wide association studies or genomic prediction in plant breeding populations, though it could be applied to other settings of linear mixed models.
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2023-06-16 |
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r-assotester
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R package with statistical tests and methods for genetic association studies with emphasis on rare variants and binary (dichotomous) traits
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2023-06-16 |
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r-adoptr
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Optimize one or two-arm, two-stage designs for clinical trials with respect to several pre-implemented objective criteria or implement custom objectives. Optimization under uncertainty and conditional (given stage-one outcome) constraints are supported. See <doi:10.1002/sim.8291> and <doi:10.18637/jss.v098.i09> for details.
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2023-06-16 |
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r-accrued
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Package for visualizing data quality of partially accruing data.
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2023-06-16 |
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r-bagrboostr
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bagRboostR is a set of ensemble classifiers for multinomial classification. The bagging function is the implementation of Breiman's ensemble as described by Opitz & Maclin (1999). The boosting function is the implementation of Stagewise Additive Modeling using a Multi-class Exponential loss function (SAMME) created by Zhu et al (2006). Both bagging and SAMME implementations use randomForest as the weak classifier and expect a character outcome variable. Each ensemble classifier returns a character vector of predictions for the test set.
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2023-06-16 |
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r-ate
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Nonparametric estimation and inference for average treatment effects based on covariate balancing.
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2023-06-16 |
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r-anoint
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public |
The tools in this package are intended to help researchers assess multiple treatment-covariate interactions with data from a parallel-group randomized controlled clinical trial.
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2023-06-16 |
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r-alterryx
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public |
A tool to access each of the 'Alteryx' Gallery 'API' endpoints. Users can queue jobs, poll job status, and retrieve application output as a data frame. You will need an 'Alteryx' Server license and have 'Alteryx' Gallery running to utilize this package. The 'API' is accessed through the 'URL' that you setup for the server running 'Alteryx' Gallery and more information on the endpoints can be found at <https://gallery.alteryx.com/api-docs/>.
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2023-06-16 |
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r-asypow
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A set of routines written in the S language that calculate power and related quantities utilizing asymptotic likelihood ratio methods.
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2023-06-16 |
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r-astrolibr
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Several dozen low-level utilities and codes from the Interactive Data Language (IDL) Astronomy Users Library (http://idlastro.gsfc.nasa.gov) are implemented in R. They treat: time, coordinate and proper motion transformations; terrestrial precession and nutation, atmospheric refraction and aberration, barycentric corrections, and related effects; utilities for astrometry, photometry, and spectroscopy; and utilities for planetary, stellar, Galactic, and extragalactic science.
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2023-06-16 |
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r-argon2
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Utilities for secure password hashing via the argon2 algorithm. It is a relatively new hashing algorithm and is believed to be very secure. The 'argon2' implementation included in the package is the reference implementation. The package also includes some utilities that should be useful for digest authentication, including a wrapper of 'blake2b'. For similar R packages, see sodium and 'bcrypt'. See <https://en.wikipedia.org/wiki/Argon2> or <https://eprint.iacr.org/2015/430.pdf> for more information.
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2023-06-16 |
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r-allelic
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This is the implementation in R+C of a new association test described in "A fast, unbiased and exact allelic exact test for case-control association studies" (Submitted). It appears that in most cases the classical chi-square test used for testing for allelic association on genotype data is biased. Our test is unbiased, exact but fast throught careful optimization.
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2023-06-16 |
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r-bairt
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Bayesian estimation of the two and three parameter models of item response theory (IRT). Also, it is possible to use a web interactive application intended for the making of an MCMC estimation and model-fit of the IRT models.
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2023-06-16 |
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r-attrcusum
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An implementation of tools for design of attribute variable sampling interval cumulative sum chart. It currently provides information for monitoring of mean increase such as average number of sample to signal, average time to signal, a matrix of transient probabilities, suitable control limits when the data are (zero inflated) Poisson/binomial distribution. Functions in the tools can be easily applied to other count processes. Also, tools might be extended to more complicated cumulative sum control chart. We leave these issues as our perpetual work.
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2023-06-16 |
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r-anovareplication
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Allows for the computation of a prior predictive p-value to test replication of relevant features of original ANOVA studies. Relevant features are captured in informative hypotheses. The package also allows for the computation of sample sizes for new studies, post-hoc power calculations, and comes with a Shiny application in which all calculations can be conducted as well. The statistical underpinnings are described in Zondervan-Zwijnenburg (2019) <doi:10.31234/osf.io/6myqh>.
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2023-06-16 |
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r-aqr
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This R extension provides methods to use a standalone ActiveQuant Master Server from within R. Currently available features include fetching and storing historical data, receiving and sending live data. Several utility methods for simple data transformations are included, too. For support requests, please join the mailing list at https://r-forge.r-project.org/mail/?group_id=1518
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2023-06-16 |
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r-atus
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Abridged data from the American Time Use Survey (ATUS) for years 2003-2016. The ATUS is an annual survey conducted on a sample of individuals across the United States studying how individuals spent their time over the course of a day. Individual respondents were interviewed about what activities they did, during what times (rounded to 15 minute increments), at what locations, and in the presence of which individuals. The activities are subsequently encoded based on 3 separate tier codes for classification. This package includes data from the multi-year ATUS Activities, ATUS-CPS, and ATUS Respondents files were included. Columns were selected based on completeness of data as well as presence on the Frequently Used Variables list provided by the ATUS website. All activity codes (other than code '50' for 'Unable to Code') were included. Permission was obtained from the Bureau of Labor Statistics for inclusion in this package. The full data can be obtained from <http://www.bls.gov/tus/>.
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2023-06-16 |
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r-amget
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public |
AMGET allows to simply and rapidly creates highly informative diagnostic plots for ADAPT 5 models. Features include data analysis prior any modeling form either NONMEM or ADAPT shaped dataset, goodness-of-fit plots (GOF), posthoc-fits plots (PHF), parameters distribution plots (PRM) and visual predictive check plots (VPC) based on ADAPT output.
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2023-06-16 |
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r-amore
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This package was born to release the TAO robust neural network algorithm to the R users. It has grown and I think it can be of interest for the users wanting to implement their own training algorithms as well as for those others whose needs lye only in the "user space".
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2023-06-16 |
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r-allanvar
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A collection of tools for stochastic sensor error characterization using the Allan Variance technique originally developed by D. Allan.
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2023-06-16 |
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r-aim
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R functions for adaptively constructing index models for continuous, binary and survival outcomes. Implementation requires loading R-pacakge "survival"
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2023-06-16 |
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r-acd
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Categorical data analysis with complete or missing responses
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2023-06-16 |
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r-admmnet
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Fit linear and cox models regularized with net (L1 and Laplacian), elastic-net (L1 and L2) or lasso (L1) penalty, and their adaptive forms, such as adaptive lasso and net adjusting for signs of linked coefficients. In addition, it treats the number of non-zero coefficients as another tuning parameter and simultaneously selects with the regularization parameter. The package uses one-step coordinate descent algorithm and runs extremely fast by taking into account the sparsity structure of coefficients.
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2023-06-16 |
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r-baessd
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Implements sample size calculations following the approach described in "Bayesian Average Error Based Approach to Hypothesis Testing and Sample Size Determination."
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2023-06-16 |
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r-analyz
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Class with methods to read and execute R commands described as steps in a CSV file.
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2023-06-16 |
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r-apple
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Approximate Path for Penalized Likelihood Estimators for Generalized Linear Models penalized by LASSO or MCP
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2023-06-16 |
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r-acrt
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Functions for testing affine hypotheses on the regression coefficient vector in regression models with autocorrelated errors.
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2023-06-16 |
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r-autopls
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Some convenience functions for pls regression, including backward variable selection and validation procedures, image based predictions and plotting.
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2023-06-16 |
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r-atmcmc
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Uses adaptive diagnostics to tune and run a random walk Metropolis MCMC algorithm, to converge to a specified target distribution and estimate means of functionals.
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2023-06-16 |
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r-agsemisc
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High-featured panel functions for bwplot and xyplot, some plot management helpers, various convenience functions
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2023-06-16 |
