This package provides a set of Hoe plugins for tighter Git integration. It provides tasks to automate release tagging and pushing and changelog generation.

This package provides curated gene target databases derived from ChIP-seq datasets, formatted as ChIPDB objects for use with TFEA.ChIP.

This package provides a Shiny interface developed in close coordination with the CTT package, providing a GUI that guides the user through CTT analyses.

Extracts colors from various image types, returns customized reports and plots treemaps and 3D scatterplots of image compositions. Color palettes can also be created.

This package performs mean shift classification using linear and k-d tree based nearest neighbor implementations for the Gaussian, Epanechnikov, and biweight product kernels.

Uses recursive partitioning to create homogeneous subgroups based on structural equation models fit in Mplus', a stand-alone program developed by Muthen and Muthen.

This package provides standardized access to a range of re-scaling methods for numerical vectors and time-series features calculated within the theft ecosystem.

Transform a Movie into a Synthetic Picture. A frame every 10 seconds is summarized into one colour, then every generated colors are stacked together.

Several functions and S3 methods to construct a super learner in the presence of censored times-to-event and to evaluate its prognostic capacities.

This package implements a simple, novel clustering algorithm based on optimizing the silhouette width. See <doi:10.1101/2023.11.07.566055> for details.

Calculates trait moments from trait and community data using the methods developed in Maitner et al (2021) <doi:10.22541/au.162196147.76797968/v1>.

Compile snippets of LaTeX directly into images from the R console to view in the RStudio viewer pane, Shiny apps and RMarkdown documents.

Aims at loading Facebook and Instagram advertising data from Smartly.io into R. Smartly.io is an online advertising service that enables advertisers to display commercial ads on social media networks (see <http://www.smartly.io/> for more information). The package offers an interface to query the Smartly.io API and loads data directly into R for further data processing and data analysis.

Supports concordances in R Markdown documents. This currently allows the original source location in the .Rmd file of errors detected by HTML tidy to be found more easily, and potentially allows forward and reverse search in HTML and LaTeX documents produced from R Markdown'. The LaTeX support has been included in the most recent development version of the patchDVI package.

This package provides R-squared values and standardized regression coefficients for linear models applied to multiply imputed datasets as obtained by mice'. Confidence intervals, zero-order correlations, and alternative adjusted R-squared estimates are also available. The methods are described in Van Ginkel and Karch (2024) <doi:10.1111/bmsp.12344> and in Van Ginkel (2020) <doi:10.1007/s11336-020-09696-4>.

Robust parameter estimation and prediction of Gaussian stochastic process emulators. It allows for robust parameter estimation and prediction using Gaussian stochastic process emulator. It also implements the parallel partial Gaussian stochastic process emulator for computer model with massive outputs See the reference: Mengyang Gu and Jim Berger, 2016, Annals of Applied Statistics; Mengyang Gu, Xiaojing Wang and Jim Berger, 2018, Annals of Statistics.

R wrapper of the libmf library <https://www.csie.ntu.edu.tw/~cjlin/libmf/> for recommender system using matrix factorization. It is typically used to approximate an incomplete matrix using the product of two matrices in a latent space. Other common names for this task include "collaborative filtering", "matrix completion", "matrix recovery", etc. High performance multi-core parallel computing is supported in this package.

This package provides tools for performing phylogenetic comparative methods for datasets with with multiple observations per species (intraspecific variation or measurement error) and/or missing data (Goolsby et al. 2017). Performs ancestral state reconstruction and missing data imputation on the estimated evolutionary model, which can be specified as Brownian Motion, Ornstein-Uhlenbeck, Early-Burst, Pagel's lambda, kappa, or delta, or a star phylogeny.

fast_xs escapes text so it can be embedded more directly into XML and HTML without having to deal with character set issues.

This is a representation of public golub data with some covariate data of provenance unknown to the maintainer at present; it now employs ExpressionSet format.

This package contains several tools for analyzing Sanger Sequencing data files in R, including reading .scf and .ab1 files, making basecalls and plotting chromatograms.

This package allows for persistent storage, access, exploration, and manipulation of Cufflinks high-throughput sequencing data. In addition, provides numerous plotting functions for commonly used visualizations.

A rich drop-in replacement for base. For details and documentation please visit the project's home page.

Automatically generate a changelog file (NEWS.md / CHANGELOG.md) from the git history using conventional commit messages (<https://www.conventionalcommits.org/en/v1.0.0/>).