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

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.

Anglemania extracts genes from multi-batch scRNA-seq experiments for downstream dataset integration. It improves conventional usage of highly-variable genes for integration tasks.

This package contains an implementation of RFC 2388, which is used to process form data posted with HTTP POST method using enctype "multipart/form-data".

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

Daemons provides a way to wrap existing Ruby scripts to be run as a daemon and to be controlled by simple start/stop/restart commands.

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.

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.

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>.

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.

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.

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.

receptLoss identifies genes whose expression is lost in subsets of tumors relative to normal tissue. It is particularly well-suited in cases where the number of normal tissue samples is small, as the distribution of gene expression in normal tissue samples is approximated by a Gaussian. Originally designed for identifying nuclear hormone receptor expression loss but can be applied transcriptome wide as well.

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/>).

Standard template library containers are used to implement an efficient binary segmentation algorithm, which is log-linear on average and quadratic in the worst case.

This package provides ability to control how many times in function calls conditions are thrown (shown to the user). Includes control of warnings and messages.

Construct directed graphs of S4 class hierarchies and visualize them. In general, these graphs typically are DAGs (directed acyclic graphs), often simple trees in practice.

This package provides function declarations and inline function definitions that facilitate communication between R and the Eigen C++ library for linear algebra and scientific computing.

Generate cofeature (feature by sample) matrices. The package utilizes ggplot2::geom_tile() to generate the matrix allowing for easy additions from the base matrix.

This package provides functions to import multiple files of multiple data file types ('.xlsx', .xls', .csv', .txt') from a given directory into R data frames.

Nonparametric cumulative-incidence based estimation of the ratios of sub-hazard ratios to cause-specific hazard ratios using the approach from Ng et al. (2020).

This package provides a collection of tools for analyzing significance of Markowitz portfolios, using the delta method on the second moment matrix, <arxiv:1312.0557>.

Generate central composite designs (CCD)with full as well as fractional factorial points (half replicate) and Box Behnken designs (BBD) with minimally changed run sequence.