Approximations of global p-values when testing hypothesis in presence of non-identifiable nuisance parameters. The method relies on the Euler characteristic heuristic and the expected Euler characteristic is efficiently computed by in Algeri and van Dyk (2018) <arXiv:1803.03858>.

This package provides a minimalistic, dependency-free alternative to roxygen2'. Reads # comment blocks above R functions and objects and turns them into .Rd documentation files and a NAMESPACE file. tinyroxygen is to roxygen2 what tinytest is to testthat', a lightweight alternative built with base R only, with no recursive dependencies to install. Roxygen stands for R documentation inspired by the Doxygen for C++ documentation tools.

This package provides functions for visualizing networks with tmap'. It supports sfnetworks objects natively but is not limited to them. Useful for adding network layers such as edges and nodes to tmap maps. More features may be added in future versions.

Transfer learning for generalized factor models with support for continuous, count (Poisson), and binary data types. The package provides functions for single and multiple source transfer learning, source detection to identify positive and negative transfer sources, factor decomposition using Maximum Likelihood Estimation (MLE), and information criteria ('IC1 and IC2') for rank selection. The methods are particularly useful for high-dimensional data analysis where auxiliary information from related source datasets can improve estimation efficiency in the target domain.

R implementation of the software tools developed in the H-CUP (Healthcare Cost and Utilization Project) <https://hcup-us.ahrq.gov> and AHRQ (Agency for Healthcare Research and Quality) <https://www.ahrq.gov>. It currently contains functions for mapping ICD-9 codes to the AHRQ comorbidity measures and translating ICD-9 (resp. ICD-10) codes to ICD-10 (resp. ICD-9) codes based on GEM (General Equivalence Mappings) from CMS (Centers for Medicare and Medicaid Services).

Interactively gate points on a scatter plot. Interactively drawn gates are recorded and can be applied programmatically to reproduce results exactly. Programmatic gating is based on the package gatepoints by Wajid Jawaid.

Helps teachers convert existing .Rmd and .qmd teaching material into interactive tutorials for learnr or quarto-live'. Conversion preserves narrative text, setup chunks, and major chunk options, supports teacher tags, and provides explicit validation and conversion reports. Output conventions follow learnr as described by Aden-Buie et al. (2025) <doi:10.32614/CRAN.package.learnr>, quarto-live as described by Stagg (2024) <https://tidyverse.org/blog/2024/10/quarto-live-0-1-1/>, and R Markdown as described by Xie, Allaire and Grolemund (2018, ISBN:9781138359338).

Implement the Tariff algorithm for coding cause-of-death from verbal autopsies. The Tariff method was originally proposed in James et al (2011) <DOI:10.1186/1478-7954-9-31> and later refined as Tariff 2.0 in Serina, et al. (2015) <DOI:10.1186/s12916-015-0527-9>. Note that this package was not developed by authors affiliated with the Institute for Health Metrics and Evaluation and thus unintentional discrepancies may exist between the this implementation and the implementation available from IHME.

Helper functions for processing REDCap data in R. REDCap is a web-enabled application for building and managing surveys and databases developed at Vanderbilt University.

This package provides Apache Spark style window aggregation for R dataframes and remote dbplyr tables via mutate in dplyr flavour.

Increases the ease of implementing a temporally-explicit modeling methodology when building ecological niche and species distribution models. Provides functions to assist with three major steps of temporally-explicit models: (i) preprocessing species and environmental data and generating suitable background or pseudoabsence data, (ii) building a niche model and generating temporally-explicit predictions from that model, and (iii) model postprocessing to explore spatiotemporal trends in model predictions. Methodological and theoretical foundations are described in Ingenloff and Peterson (2021) <doi:10.1111/2041-210X.13564>, Franklin (2010, ISBN:9780521700023), Peterson et al. (2011, ISBN:9780691136882), Blonder (2018) <doi:10.1111/ecog.03187>, Senay et al. (2013) <doi:10.1371/journal.pone.0071218>, and Li and Zhang (2024) <doi:10.48550/arXiv.2404.05933>.

Propensity score matching for non-binary treatments.

This package creates geographic map tiles from geospatial map files or non-geographic map tiles from simple image files. This package provides a tile generator function for creating map tile sets for use with packages such as leaflet'. In addition to generating map tiles based on a common raster layer source, it also handles the non-geographic edge case, producing map tiles from arbitrary images. These map tiles, which have a non-geographic, simple coordinate reference system (CRS), can also be used with leaflet when applying the simple CRS option. Map tiles can be created from an input file with any of the following extensions: tif, grd and nc for spatial maps and png, jpg and bmp for basic images. This package requires Python and the gdal library for Python'. Windows users are recommended to install OSGeo4W (<https://trac.osgeo.org/osgeo4w/>) as an easy way to obtain the required gdal support for Python'.

This package provides functions to create Truchet tiles, so called after Sébastien Truchet who was the first to describe the patterns obtained by rotating tiles with respect to each other. This form of tiling is described by Smith and Boucher (1987) <https://muse.jhu.edu/article/600574>.

This package implements a task queue system for asynchronous parallel computing using PostgreSQL <https://www.postgresql.org/> as a backend. Designed for embarrassingly parallel problems where tasks do not communicate with each other. Dynamically distributes tasks to workers, handles uneven load balancing, and allows new workers to join at any time. Particularly useful for running large numbers of independent tasks on high-performance computing (HPC) clusters with SLURM <https://slurm.schedmd.com/> job schedulers.

This package contains R functions for simulating and estimating integer-valued trawl processes as described in the article Veraart (2019),"Modeling, simulation and inference for multivariate time series of counts using trawl processes", Journal of Multivariate Analysis, 169, pages 110-129, <doi:10.1016/j.jmva.2018.08.012> and for simulating random vectors from the bivariate negative binomial and the bi- and trivariate logarithmic series distributions.

Fitting tree-structured varying coefficient models (Berger et al. (2019), <doi:10.1007/s11222-018-9804-8>). Simultaneous detection of covariates with varying coefficients and effect modifiers that induce varying coefficients if they are present.

Using Gaussian graphical models we propose a novel approach to perform pathway analysis using gene expression. Given the structure of a graph (a pathway) we introduce two statistical tests to compare the mean and the concentration matrices between two groups. Specifically, these tests can be performed on the graph and on its connected components (cliques). The package is based on the method described in Massa M.S., Chiogna M., Romualdi C. (2010) <doi:10.1186/1752-0509-4-121>.

This package provides a collection of functions to plot acid/base titration curves (pH vs. volume of titrant), complexation titration curves (pMetal vs. volume of EDTA), redox titration curves (potential vs.volume of titrant), and precipitation titration curves (either pAnalyte or pTitrant vs. volume of titrant). Options include the titration of mixtures, the ability to overlay two or more titration curves, and the ability to show equivalence points.

This package provides a fast, interactive cross-platform, and easy to share WebGL'-based 3D brain viewer that visualizes FreeSurfer and/or AFNI/SUMA surfaces. The viewer widget can be either standalone or embedded into R-shiny applications. The standalone version only require a web browser with WebGL2 support (for example, Chrome', Firefox', Safari'), and can be inserted into any websites. The R-shiny support allows the 3D viewer to be dynamically generated from reactive user inputs. Please check the publication by Wang, Magnotti, Zhang, and Beauchamp (2023, <doi:10.1523/ENEURO.0328-23.2023>) for electrode localization. This viewer has been fully adopted by RAVE <https://openwetware.org/wiki/RAVE>, an interactive toolbox to analyze iEEG data by Magnotti, Wang, and Beauchamp (2020, <doi:10.1016/j.neuroimage.2020.117341>). Please check citation("threeBrain") for details.

R spatial objects for Tilegrams. Tilegrams are tiled maps where the region size is proportional to the certain characteristics of the dataset.

The tmap package provides two plotting modes for static and interactive thematic maps. This package extends tmap with two additional modes based on Mapbox GL JS and MapLibre GL JS'. These modes feature interactive vector tiles, globe views, and other modern web-mapping capabilities, while maintaining a consistent tmap interface across all plotting modes.

Each sequence is predicted by expanding the distance matrix. The compact set of hyper-parameters is tuned through random search.

The LSTM (Long Short-Term Memory) model is a Recurrent Neural Network (RNN) based architecture that is widely used for time series forecasting. Customizable configurations for the model are allowed, improving the capabilities and usability of this model compared to other packages. This package is based on keras and tensorflow modules and the algorithm of Paul and Garai (2021) <doi:10.1007/s00500-021-06087-4>.