The rcshist utility displays the complete revision history of a set of RCS files including log messages and patches. It can also display the patch associated with a particular revision of an RCS file.

iSEEu (the iSEE universe) contains diverse functionality to extend the usage of the iSEE package, including additional classes for the panels, or modes allowing easy configuration of iSEE applications.

The PLIER (Probe Logarithmic Error Intensity Estimate) method produces an improved signal by accounting for experimentally observed patterns in probe behavior and handling error at the appropriately at low and high signal values.

This package provides a collection of datasets on the Alone survival TV series in tidy format. Included in the package are 4 datasets detailing the survivors, their loadouts, episode details and season information.

Data sets are referred to in the text "Applied Survival Analysis Using R" by Dirk F. Moore, Springer, 2016, ISBN: 978-3-319-31243-9, <DOI:10.1007/978-3-319-31245-3>.

Bayesian Hierarchical beta-binomial models for modeling cell population to predictors/exposures. This package utilizes runjags to run Gibbs sampling, parallelizing the chains. Options for different covariances/relationship structures between parameters of interest.

Connect to the California Irrigation Management Information System (CIMIS) Web API. See the CIMIS main page <https://cimis.water.ca.gov> and web API documentation <https://et.water.ca.gov> for more information.

Allows to visualize high-density electroencephalography (HD-EEG) data through interactive plots and animations, enabling exploratory and communicative analysis of temporal-spatial brain signals. Funder: Masaryk University (Grant No. MUNI/A/1457/2023).

Fit a fractional binomial regression model and extended zero-inflated negative binomial regression model to count data with excess zeros using maximum likelihood estimation. Compare zero-inflated regression models via Vuong closeness test.

Calculate an optimal embedding of a set of data points into low-dimensional hyperbolic space. This uses the strain-minimizing hyperbolic embedding of Keller-Ressel and Nargang (2019), see <arXiv:1903.08977>.

Manipulate data through memory-mapped files, as vectors, matrices or arrays. Basic arithmetic functions are implemented, but currently no matrix arithmetic. Can write and read descriptor files for compatibility with the bigmemory package.

This package provides functions implementing change point detection methods using the maximum pairwise Bayes factor approach. Additionally, the package includes tools for generating simulated datasets for comparing and evaluating change point detection techniques.

Call the data wrappers for Izmir Metropolitan Municipality's Open Data Portal. This will return all datasets formatted as Excel files (.csv or .xlsx), as well as datasets that require an API key.

Calculate point estimates of and valid confidence intervals for longitudinal summaries of nonparametric, algorithm-agnostic variable importance measures. For more details, see Williamson et al. (2024) <doi:10.48550/arXiv.2311.01638>.

This package implements contamination bias diagnostics and alternative estimators for regressions with multiple treatments. The implementation is based on Goldsmith-Pinkham, Hull, and Kolesár (2024) <doi:10.48550/arXiv.2106.05024>.

This package implements a group-bridge penalized function-on-scalar regression model proposed by Wang et al. (2023) <doi:10.1111/biom.13684>, to simultaneously estimate functional coefficient and recover the local sparsity.

This is an all-encompassing suite to facilitate the simulation of so-called quantities of interest by way of a multivariate normal distribution of the regression model's coefficients and variance-covariance matrix.

This package provides a set of functions to calculate sample size for two-sample difference in means tests. Does adjustments for either nonadherence or variability that comes from using data to estimate parameters.

This package provides a coordinate descent algorithm for computing the solution paths of the sparse and coupled sparse asymmetric least squares, including the (adaptive) elastic net and Lasso penalized SALES and COSALES regressions.

This package provides access to geocomputing and terrain analysis functions of the geographical information system (GIS) SAGA (System for Automated Geoscientific Analyses) from within R by running the command line version of SAGA. This package furthermore provides several R functions for handling ASCII grids, including a flexible framework for applying local functions (including predict methods of fitted models) and focal functions to multiple grids. SAGA GIS is available under GPL-2 / LGPL-2 licences from <https://sourceforge.net/projects/saga-gis/>.

This package provides streamlined functions for summarising and visualising regression models fitted with the rms package, in the preferred format for medical journals. The modelsummary_rms() function produces concise summaries for linear, logistic, and Cox regression models, including automatic handling of models containing restricted cubic spline (RCS) terms. The resulting summary dataframe can be easily converted into publication-ready documents using the flextable and officer packages. The ggrmsMD() function creates clear and customizable plots ('ggplot2 objects) to visualise RCS terms.

The package implements an algorithm for fast gene set enrichment analysis. Using the fast algorithm makes more permutations and gets more fine grained p-values, which allows using accurate standard approaches to multiple hypothesis correction.

This package aims to provide a pipeline for the low-level analysis of gene expression microarray data, primarily focused on the Agilent platform, but which also provides utilities which may be useful for other platforms.

This is a package for segmentation of allele-specific DNA copy number data and detection of regions with abnormal copy number within each parental chromosome. Both tumor-normal paired and tumor-only analyses are supported.