This package provides a package for RNA basepair analysis, including the visualization of basepairs as arc diagrams for easy comparison and annotation of sequence and structure. Arc diagrams can additionally be projected onto multiple sequence alignments to assess basepair conservation and covariation, with numerical methods for computing statistics for each.

Fit statistical models based on the Dawid-Skene model - Dawid and Skene (1979) <doi:10.2307/2346806> - to repeated categorical rating data. Full Bayesian inference for these models is supported through the Stan modelling language. rater also allows the user to extract and plot key parameters of these models.

Screens all .R', .Rmd', and .qmd files to extract the name of packages used in a project. This package detects packages called with library(foo)', require(foo)', foo::bar() and use("foo", "bar") and adds these dependencies in the DESCRIPTION file in the sections Depends, Imports, and Suggests.

This is a library to access the current API of the web speed test service GTmetrix'. It provides a convenient wrapper to start tests, get reports, and access all kinds of meta data. For more information about using the API please visit <https://gtmetrix.com/api/docs/2.0/>.

Allows users to easily create references to R objects then dereference when needed or modify in place without using reference classes, environments, or active bindings as workarounds. Users can also create expression references that allow subsets of any object to be referenced or expressions containing references to multiple objects.

This package implements the regularized exponentially tilted empirical likelihood method. Details of the method are given in Kim, MacEachern, and Peruggia (2023) <doi:10.48550/arXiv.2312.17015>. This work was supported by the U.S. National Science Foundation under Grants No. SES-1921523 and DMS-2015552.

Generate stimuli and analyze data of reverse correlation image classification experiments (psychophysical tasks aimed at visualizing cognitive mental representations of faces). For the method see Dotsch and Todorov (2012) <doi:10.1177/1948550611430272>; for a practical primer see Brinkman, Todorov and Dotsch (2017) <doi:10.1080/10463283.2017.1381469>.

Principal curves generalize the notion of a first principal component to the case in which it is a nonlinear smooth curve. This package provides a function pcop(X) to compute principal curves with the algorithm defined in Delicado (2001) <doi:10.1006/jmva.2000.1917> from a data matrix X.

R interface to DSDP semidefinite programming library. The DSDP software is a free open source implementation of an interior-point method for semidefinite programming. It provides primal and dual solutions, exploits low-rank structure and sparsity in the data, and has relatively low memory requirements for an interior-point method.

This package provides many functions for computing the nonparametric maximum likelihood estimator (NPMLE) for censored and truncated data.

This package provides interfaces to audio devices (mainly sample-based) from R to allow recording and playback of audio.

This package provides a computationally stable approach of fitting a Gaussian Process (GP) model to a deterministic simulator.

Customize Bootstrap and Bootswatch themes, like colors, fonts, grid layout, to use in Shiny applications, rmarkdown documents and flexdashboard.

This package integrates sophisticated mixed modelling methods with a whole genome approach to detecting significant QTL in linkage maps.

This package provides an interface to lm.wfit for fitting dynamic linear models and time series regression relationships.

Rove is a unit testing framework for Common Lisp applications. This is intended to be a successor of Prove.

Provide simple utilities for querying bhklab PharmacoDB, modeling API outputs, and integrating to cell and compound ontologies.

Small package to clean the R console and the R environment with the call of just one function.

Implementation of the Wilkinson and Ivany (2002) approach to paleoclimate analysis, applied to isotope data extracted from clams.

Parse, format, and validate international phone numbers using Google's libphonenumber java library, <https://github.com/google/libphonenumber>.

This package provides a toolkit for parsing dice notation, analyzing rolls, calculating success probabilities, and plotting outcome distributions.

This is the companion package to the Data Visualization Geometries Encyclopedia, providing seamless access to the associated data.

Efficient covariate-adjusted estimators of quantities that are useful for establishing the effects of treatments on ordinal outcomes.

This package provides a collection of nice plotting functions directly from a data.frame with limited customisation possibilities.