As a successor of the packages BatchJobs and BatchExperiments, this package provides a parallel implementation of the Map function for high performance computing systems managed by various schedulers. A multicore and socket mode allow the parallelization on a local machines, and multiple machines can be hooked up via SSH to create a makeshift cluster. Moreover, the package provides an abstraction mechanism to define large-scale computer experiments in a well-organized and reproducible way.

This package provides tools to enumerates the partitions, unequal partitions, and restricted partitions of an integer; the three corresponding partition functions are also given.

This package provides a wrapper for the Intro.js library. This package makes it easy to include step-by-step introductions, and clickable hints in a Shiny application. It supports both static introductions in the UI, and programmatic introductions from the server-side.

This package provides tools that can be used to calculate, evaluate, plot and use for inference the profiles of *arbitrary* inference functions for arbitrary glm-like fitted models with linear predictors. More information on the methods that are implemented can be found in Kosmidis (2008) https://www.r-project.org/doc/Rnews/Rnews_2008-2.pdf.

This package provides features to build gradient color maps.

The SciViews svGUI package eases the management of Graphical User Interfaces (GUI) in R. It is independent from any particular GUI widgets. It centralizes info about GUI elements currently used, and it dispatches GUI calls to the particular toolkits in use in function of the context.

This package provides functions for estimating marginal likelihoods, Bayes factors, posterior model probabilities, and normalizing constants in general, via different versions of bridge sampling.

oai provides a general purpose client to work with any Open Archives Initiative Protocol for 'Metadata' Harvesting (OAI-PMH) service. Functions are provided to work with the OAI-PMH verbs: GetRecord, Identify, ListIdentifiers, ListMetadataFormats, ListRecords, and ListSets.

This is an extension to Shiny that brings interactions and animation effects from the jQuery UI library.

This package aims to identify candidate genes that are differentially methylated between cases and controls. It applies Student's t-test and delta beta analysis to identify candidate genes containing multiple CpG sites.

This package provides tools to calculate the Earth Mover's Distance (EMD).

Make acoustic cues to use with the R package ndl. The package implements functions used in the PLoS ONE paper "Words from spontaneous conversational speech can be recognized with human-like accuracy by an error-driven learning algorithm that discriminates between meanings straight from smart acoustic features, bypassing the phoneme as recognition unit." doi:10.1371/journal.pone.0174623

This package is primarily meant as an implementation of generalized blockmodeling for valued networks. In addition, measures of similarity or dissimilarity based on structural equivalence and regular equivalence (REGE algorithms) can be computed and partitioned matrices can be plotted.

With this tool, a user should be able to quickly implement complex random effect models through simple C++ templates. The package combines CppAD (C++ automatic differentiation), Eigen (templated matrix-vector library) and CHOLMOD (sparse matrix routines available from R) to obtain an efficient implementation of the applied Laplace approximation with exact derivatives. Key features are: Automatic sparseness detection, parallelism through BLAS and parallel user templates.

This package provides qualitative methods for the validation of dynamic models. It contains

1. an orthogonal set of deviance measures for absolute, relative and ordinal scale and

2. approaches accounting for time shifts.

The first approach transforms time to take time delays and speed differences into account. The second divides the time series into interval units according to their main features and finds the longest common subsequence (LCS) using a dynamic programming algorithm.

This package contains functions for non-parametric survival analysis of exact and interval-censored observations.

This package provides a parallel backend for the %dopar% function using the snow package.

This package provides useful tools to pry back the covers of R and understand the language at a deeper level.

This package provides an interface to Amazon Web Services networking and content delivery services, including Route 53 Domain Name System service, CloudFront content delivery, load balancing, and more.

Fit a logistic regression model using Firth's bias reduction method, equivalent to penalization of the log-likelihood by the Jeffreys prior. Confidence intervals for regression coefficients can be computed by penalized profile likelihood. Firth's method was proposed as ideal solution to the problem of separation in logistic regression, see Heinze and Schemper (2002) <doi:10.1002/sim.1047>. If needed, the bias reduction can be turned off such that ordinary maximum likelihood logistic regression is obtained. Two new modifications of Firth's method, FLIC and FLAC, lead to unbiased predictions and are now available in the package as well, see Puhr et al (2017) <doi:10.1002/sim.7273>.

This package provides a framework for text mining applications within R.

This package provides tools to compute marginal effects from statistical models and return the result as tidy data frames. These data frames are ready to use with the ggplot2 package. Marginal effects can be calculated for many different models. Interaction terms, splines and polynomial terms are also supported. The two main functions are ggpredict() and ggeffect(). There is a generic plot() method to plot the results using ggplot2.

This package offers classes and functions to contact web servers while enforcing scheduling rules required by the sites. The URL class makes it easy to construct a URL by providing parameters as a vector. The Request class allows to describe Simple Object Access Protocol (SOAP) or standard requests: URL, method (POST or GET), header, body. The Scheduler class controls the request frequency for each server address by means of rules (Rule class). The RequestResult class permits to get the request status to handle error cases and the content.

This package implements the Subplex optimization algorithm. It solves unconstrained optimization problems using a simplex method on subspaces. The method is well suited for optimizing objective functions that are noisy or are discontinuous at the solution.