Various visual and numerical diagnosis methods for the nonlinear mixed effect model, including visual predictive checks, numerical predictive checks, and coverage plots (Karlsson and Holford, 2008, <https://www.page-meeting.org/?abstract=1434>).

An interactive document on the topic of naive Bayes classification analysis using rmarkdown and shiny packages. Runtime examples are provided in the package function as well as at <https://kartikeyab.shinyapps.io/NBShiny/>.

This package provides functions and data-sets that are helpful for teaching statistics and data analysis. It was originally designed for use when teaching students in the Psychology Department at Nottingham Trent University.

Simulation tools for planning Vitamin D studies. Individual vitamin D status profiles are simulated, modelling population heterogeneity in trial arms. Exposures to infectious agents are generated, with infection depending on vitamin D status.

Fast SVMlight reader and writer. SVMlight is most commonly used format for storing sparse matrices (possibly with some target variable) on disk. For additional information about SVMlight format see <http://svmlight.joachims.org/>.

This package provides tools for smoothing and tidying spatial features (i.e. lines and polygons) to make them more aesthetically pleasing. Smooth curves, fill holes, and remove small fragments from lines and polygons.

Higher Criticism (HC) test between two frequency tables. Test is based on an adaptation of the Tukey-Donoho-Jin HC statistic to testing frequency tables described in Kipnis (2019) <arXiv:1911.01208>.

UpSet.js is a re-implementation of UpSetR to create interactive set visualizations for more than three sets. This is a htmlwidget wrapper around the JavaScript library UpSet.js'.

Some data treated by the Japanese R user require unique operations and processing. These are caused by address, Kanji, and traditional year representations. zipangu transforms specific to Japan into something more general one.

Clomial fits binomial distributions to counts obtained from Next Gen Sequencing data of multiple samples of the same tumor. The trained parameters can be interpreted to infer the clonal structure of the tumor.

This package provides a general tool to identify genomic features with a specific biologically interesting pattern of associations with multiple endpoint variables as described in Pounds et. al. (2009) Bioinformatics 25: 2013-2019.

This package implements a parametric semi-supervised mixture model. The permutation test detects markers with main or interactive effects, without distinguishing them. Possible applications include genome-wide association analysis and differential expression analysis.

This includes a set of convenience functions for working with the SummarizedExperiment class. Note that plotting functions historically in this package have been moved to the sechm package (see vignette for details).

This package performs unbiased cell type recognition from single-cell RNA sequencing data, by leveraging reference transcriptomic datasets of pure cell types to infer the cell of origin of each single cell independently.

The feature package contains functions to display and compute kernel density estimates, significant gradient and significant curvature regions. Significant gradient and/or curvature regions often correspond to significant features (e.g. local modes).

This package provides functions to fit kernel density functions to data on temporal activity patterns of animals; estimate coefficients of overlapping of densities for two species; and calculate bootstrap estimates of confidence intervals.

This package provides fast and accurate convolution-type smoothed quantile regression, implemented using Barzilai-Borwein gradient descent with a Huber regression warm start. Confidence intervals for regression coefficients are constructed using multiplier bootstrap.

This package provides a common interface to allow users to specify a model without having to remember the different argument names across different functions or computational engines (e.g. R, Spark, Stan, etc).

This package provides the definition of home_dir used by cargo and rustup, as well as functions to find the correct value of CARGO_HOME and RUSTUP_HOME.

This package provides a native Rust encoder and decoder of TOML-formatted files and streams. Provides implementations of the standard Serialize/Deserialize traits for TOML data to facilitate deserializing and serializing Rust structures.

This package provides a native Rust encoder and decoder of TOML-formatted files and streams. Provides implementations of the standard Serialize/Deserialize traits for TOML data to facilitate deserializing and serializing Rust structures.

This package provides a native Rust encoder and decoder of TOML-formatted files and streams. Provides implementations of the standard Serialize/Deserialize traits for TOML data to facilitate deserializing and serializing Rust structures.

This package provides a native Rust encoder and decoder of TOML-formatted files and streams. Provides implementations of the standard Serialize/Deserialize traits for TOML data to facilitate deserializing and serializing Rust structures.

This package provides a native Rust encoder and decoder of TOML-formatted files and streams. Provides implementations of the standard Serialize/Deserialize traits for TOML data to facilitate deserializing and serializing Rust structures.