This package provides a formula sub is a subformula of formula if all the terms on the right hand side of sub are terms of formula and their left hand sides are identical. This package aids in the creation of subformulas.

This package provides functions for creating and manipulating 12-tone (i.e., dodecaphonic) musical matrices using Arnold Schoenberg's (1923) serialism technique. This package can generate random 12-tone matrices and can generate matrices using a pre-determined sequence of notes.

Generates multiple imputed datasets from a substantive model compatible fully conditional specification model for time-to-event data. Our method assumes that the censoring process also depends on the covariates with missing values. Details will be available in an upcoming publication.

This package encapsulate many functions to conduct a differential topology analysis. It focuses on analyzing an omic dataset with multiple conditions. While the package is mostly geared toward scRNASeq, it does not place any restriction on the actual input format.

ChIP-Enrich and Poly-Enrich perform gene set enrichment testing using peaks called from a ChIP-seq experiment. The method empirically corrects for confounding factors such as the length of genes, and the mappability of the sequence surrounding genes.

FrenchFISH comprises a nuclear volume correction method coupled with two types of Poisson models: either a Poisson model for improved manual spot counting without the need for control probes; or a homogenous Poisson Point Process model for automated spot counting.

Example data for the GPA package, consisting of the p-values of 1,219,805 SNPs for five psychiatric disorder GWAS from the psychiatric GWAS consortium (PGC), with the annotation data using genes preferentially expressed in the central nervous system (CNS).

`orthosData` is the companion ExperimentData package to the `orthos` R package for mechanistic studies using differential gene expression experiments. It provides functions for retrieval from ExperimentHub and local caching of the models and datasets used internally in orthos.

Shepherd-run is a script which assists in creating one-off shepherd services from the command line. It is meant to partially fill the void left by systemd-run, since GNU Guix uses GNU Shepherd as its system service manager.

mlr3tuning implements methods for hyperparameter tuning, e.g. Grid Search, Random Search, or Simulated Annealing. Various termination criteria can be set and combined. The class AutoTuner provides a convenient way to perform nested resampling in combination with mlr3.

Geometry shapes in R are typically represented by matrices (points, lines), with more complex shapes being lists of matrices (polygons). Geometries will convert various R objects into these shapes. Conversion functions are available at both the R level, and through Rcpp.

This package provides a wrapper around the C++ library polylabel from Mapbox, providing an efficient routine for finding the approximate pole of inaccessibility of a polygon, which usually serves as an excellent candidate for labeling of a polygon.

This package provides tools to infer the code style (which style rules are followed and which ones are not) from one package and use it to check another. This makes it easier to find and correct the most important problems first.

A Multi-Cast DNS (RFC 6762) and DNS Service Discovery (RFC 6763) library. Used for resolution of hostnames to IP addresses on networks that do not have a local name server. Network services can be advertised and discovered using this mechanism.

This package provides a port of the libtest (unstable Rust) benchmark runner to Rust stable releases. Supports running benchmarks and filtering based on the name. Benchmark execution works exactly the same way and no more (caveat: black_box is still missing!).

The Evolutionary Rate Matrix is a variance-covariance matrix which describes both the rates of trait evolution and the evolutionary correlation among multiple traits. This package has functions to estimate these parameters using Bayesian MCMC. It is possible to test if the pattern of evolutionary correlations among traits has changed between predictive regimes painted along the branches of the phylogenetic tree. Regimes can be created a priori or estimated as part of the MCMC under a joint estimation approach. The package has functions to run MCMC chains, plot results, evaluate convergence, and summarize posterior distributions.

This package provides a color mapping is generated according to the break values and corresponding colors. Other colors are generated by interpolating in a certain color space. The functions were part of the circlize package <https://CRAN.R-project.org/package=circlize>.

Processes survey data and displays estimation results along with the relative standard error in a table, including the number of samples and also uses a t-distribution approach to compute confidence intervals, similar to SPSS (Statistical Package for the Social Sciences) software.

Computational tools for meta-analysis of diagnostic accuracy test. Bootstrap-based computational methods of the confidence interval for AUC of summary ROC curve and some related AUC-based inference methods are available (Noma et al. (2021) <doi:10.1080/23737484.2021.1894408>).

The deltaPlotR package implements Angoff's Delta Plot method to detect dichotomous DIF. Several detection thresholds are included, either from multivariate normality assumption or by prior determination. Item purification is supported (Magis and Facon (2014) <doi:10.18637/jss.v059.c01>).

This package provides a set of extensions for the ergm package to fit weighted networks whose edge weights are counts. See Krivitsky (2012) <doi:10.1214/12-EJS696> and Krivitsky, Hunter, Morris, and Klumb (2023) <doi:10.18637/jss.v105.i06>.

Quickly make tables of descriptive statistics (i.e., counts, percentages, confidence intervals) for categorical variables. This package is designed to work in a Tidyverse pipeline, and consideration has been given to get results from R to Microsoft Word ® with minimal pain.

This package provides a test bench for the comparison of forecasting methods in uni-variate time series. Forecasting methods are compared using different error metrics. Proposed forecasting methods and alternative error metrics can be used. Detailed discussion is provided in the vignette.

Analysis of fragmented time directionality to investigate feedback in time series. Tools provided by the package allow the analysis of feedback for a single time series and the analysis of feedback for a set of time series collected across a spatial domain.