Gain seamless access to origin-destination (OD) data from the Spanish Ministry of Transport, hosted at <https://www.transportes.gob.es/ministerio/proyectos-singulares/estudios-de-movilidad-con-big-data/opendata-movilidad>. This package simplifies the management of these large datasets by providing tools to download zone boundaries, handle associated origin-destination data, and process it efficiently with the duckdb database interface. Local caching minimizes repeated downloads, streamlining workflows for researchers and analysts. Methods described in Kotov et al. (2026) <doi:10.1177/23998083251415040>. Extensive documentation is available at <https://ropenspain.github.io/spanishoddata/index.html>, offering guides on creating static and dynamic mobility flow visualizations and transforming large datasets into analysis-ready formats.

Affords researchers the ability to draw stratified samples from the U.S. Department of Veteran's Affairs/Department of Defense Identity Repository (VADIR) database according to a variety of population characteristics. The VADIR database contains information for all veterans who were separated from the military after 1980. The central utility of the present package is to integrate data cleaning and formatting for the VADIR database with the stratification methods described by Mahto (2019) <https://CRAN.R-project.org/package=splitstackshape>. Data from VADIR are not provided as part of this package.

Cellular population mapping (CPM) a deconvolution algorithm in which single-cell genomics is required in only one or a few samples, where in other samples of the same tissue, only bulk genomics is measured and the underlying fine resolution cellular heterogeneity is inferred.

This package provides routines to check identifiability of linear structural equation models and factor analysis models. The routines are based on the graphical representation of structural equation models.

Implement different Item Response Theory (IRT) based procedures for the development of tests from item bank. The procedures are flexible enough to be adopted for the development of short forms of full-length tests. Different procedures are considered (Epifania, Anselmi & Robusto, 2022 <doi:10.1007/978-3-031-27781-8_7> and Epifania & Finos, 2025 <doi:10.1007/978-3-031-95995-0_32>). The main difference between the presented procedures refers to the degree of control that they allow for targeting specific latent trait levels. The simplest procedure, denoted as benchmark procedure, does not allow for any control on the latent trait levels of interest, while the other procedures allow for specifying either discrete latent trait levels for which the information needs to be maximized (theta-target procedure, <doi:10.1007/978-3-031-27781-8_7>) or a target information function that needs to be recreated with the selected items (item selection algorithm -ISA- denoted as Frank in <doi:10.1007/978-3-031-95995-0_32>). Another difference concerns the definition of the number of items to be selected. In the benchmark and theta-target procedures, the number of items must be defined a priori, while in ISA the number of items is determined automatically by the algorithm.

An interactive Shiny application to perform fast parameter inference on dynamical systems (described by ordinary differential equations) using gradient matching. Please see the project page for more details.

Implementation of Sequential BATTing (bootstrapping and aggregating of thresholds from trees) for developing threshold-based multivariate (prognostic/predictive) biomarker signatures. Variable selection is automatically built-in. Final signatures are returned with interaction plots for predictive signatures. Cross-validation performance evaluation and testing dataset results are also output. Detail algorithms are described in Huang et al (2017) <doi:10.1002/sim.7236>.

Setaria viridis (green foxtail) is a common weed. This package contains measurements from individual branches of a wild Setaria viridis plant collected near the author's home. The data is intended for use in data analysis practice.

Visualizes feature influence by projecting data into 2D via PCA and adjusting points toward sector centers weighted by importances. Supports linear models and optionally tree-based models via SHAP values from the fastshap package. For tree-based models, please install fastshap manually from the CRAN archive: <https://cran.r-project.org/src/contrib/Archive/fastshap/>.

This package implements consistent loss functions and the corresponding identification functions for point forecasts, including those of the mean, the median, quantiles, expectiles, moments and Huber functionals (Gneiting T (2011) <doi:10.1198/jasa.2011.r10138>; Fissler T, Ziegel JF (2016) <doi:10.1214/16-AOS1439>). Pointwise losses and realised average scores are both available. Detailed documentation of the functions properties is included for facilitating the interpretation of results.

Explore continuous, date and categorical variables with summary statistics, visualisations, and frequency tables. Brings the ease and simplicity of the sum and tab commands from Stata to R', including support for two-way cross-tabulations, hypothesis tests, duplicate and missing data exploration, and automated HTML or PDF exploratory reports.

This package implements multiple allocation and selection strategies of sampling to construct core collections primarily from clustered or grouped germplasm collection data. Provides methods for allocating entries to clusters/groups based on group sizes, group-wise distance-based diversity metrics, and group-wise diversity index estimates. Includes procedures for selecting entries within clusters/groups through random sampling, genetic distance-based approaches, and optimized diversity metricâ based selection methods. See the package documentation for more, including full list of references for the methods implemented.

This package provides a fast, GPU-free 3D software renderer written in modern C++17 with native R bindings. Renders triangle meshes to publication-quality images entirely on the CPU, requiring no display server or graphics hardware. Features multi-light Blinn-Phong shading, screen-space ambient occlusion, anti-aliasing, depth fog, transparency, wireframe rendering, texture mapping, screen-space lines and text labels, and procedural geometry generation. Supports standard mesh file formats with PNG and PPM output. Works on high-performance computing clusters, headless servers, containers, and continuous integration pipelines, making it suitable for scientific visualization across neuro-imaging, molecular structures, and general 3D graphics.

Setwise Hierarchical Rate of Erroneous Discovery (SHRED) methods for setwise variable selection with false discovery rate (FDR) control. Setwise variable selection means that sets of variables may be selected when the true variable cannot be identified. This allows us to maintain FDR control but increase power. Details of the SHRED methods are in Organ, Kenney & Gu (2026) <doi:10.48550/arXiv.2603.02160>.

Supplementary tools for evaluating and validating partial least squares structural equation models estimated with seminr'. Provides methods for predictive model assessment, importance-performance analysis with necessary condition testing, overfitting diagnostics, measurement model verification, mediator contribution analysis, unobserved heterogeneity detection via latent class and prediction-oriented segmentation, and congruence coefficient testing. All functions accept estimated seminr model objects and return results with print, summary, and plot methods.

Evaluating probabilistic forecasts via proper scoring rules. scoring implements the beta, power, and pseudospherical families of proper scoring rules, along with ordered versions of the latter two families. Included among these families are popular rules like the Brier (quadratic) score, logarithmic score, and spherical score. For two-alternative forecasts, also includes functionality for plotting scores that one would obtain under specific scoring rules.

Collision Risk Models for avian fauna (seabird and migratory birds) at offshore wind farms. The base deterministic model is derived from Band (2012) <https://tethys.pnnl.gov/publications/using-collision-risk-model-assess-bird-collision-risks-offshore-wind-farms>. This was further expanded on by Masden (2015) <doi:10.7489/1659-1> and code used here is heavily derived from this work with input from Dr A. Cook at the British Trust for Ornithology. These collision risk models are useful for marine ornithologists who are working in the offshore wind industry, particularly in UK waters. However, many of the species included in the stochastic collision risk models can also be found in the North Atlantic in the United States and Canada, and could be applied there.

Estimate the abundance of cell clones from the distribution of lengths of DNA fragments (as created by sonication, whence `sonicLength'). The algorithm in "Estimating abundances of retroviral insertion sites from DNA fragment length data" by Berry CC, Gillet NA, Melamed A, Gormley N, Bangham CR, Bushman FD. Bioinformatics; 2012 Mar 15;28(6):755-62 is implemented. The experimental setting and estimation details are described in detail there. Briefly, integration of new DNA in a host genome (due to retroviral infection or gene therapy) can be tracked using DNA sequencing, potentially allowing characterization of the abundance of individual cell clones bearing distinct integration sites. The locations of integration sites can be determined by fragmenting the host DNA (via sonication or fragmentase), breaking the newly integrated DNA at a known sequence, amplifying the fragments containing both host and integrated DNA, sequencing those amplicons, then mapping the host sequences to positions on the reference genome. The relative number of fragments containing a given position in the host genome estimates the relative abundance of cells hosting the corresponding integration site, but that number is not available and the count of amplicons per fragment varies widely. However, the expected number of distinct fragment lengths is a function of the abundance of cells hosting an integration site at a given position and a certain nuisance parameter. The algorithm implicitly estimates that function to estimate the relative abundance.

Taxonomic dictionaries, formative element lists, and functions related to the maintenance, development and application of U.S. Soil Taxonomy. Data and functionality are based on official U.S. Department of Agriculture sources including the latest edition of the Keys to Soil Taxonomy. Descriptions and metadata are obtained from the National Soil Information System or Soil Survey Geographic databases. Other sources are referenced in the data documentation. Provides tools for understanding and interacting with concepts in the U.S. Soil Taxonomic System. Most of the current utilities are for working with taxonomic concepts at the "higher" taxonomic levels: Order, Suborder, Great Group, and Subgroup.

This package provides a toolbox for defining React component wrappers which can be used seamlessly in Shiny apps.

Includes general data manipulation functions, algorithms for statistical disclosure control (Langsrud, 2024) <doi:10.1007/978-3-031-69651-0_6> and functions for hierarchical computations by sparse model matrices (Langsrud, 2023) <doi:10.32614/RJ-2023-088>.

An implementation of image processing effects that convert a photo into a line drawing image. For details, please refer to Tsuda, H. (2020). sketcher: An R package for converting a photo into a sketch style image. <doi:10.31234/osf.io/svmw5>.

Access statistical information on welfare and health in Finland from the Sotkanet open data portal <https://sotkanet.fi/sotkanet/fi/index>.

This package provides a domain-agnostic visualization utility designed to bypass structural rendering limitations within multi-trace three-dimensional animations in Plotly by implementing a decoupled rendering pipeline. Computational processing of time-dependent physical states (markers and nodes) is managed within the R environment, while a custom hardware-accelerated WebGL injection handles the synchronous rendering of complex topological frameworks (lines and edges) directly within the UI browser interface via htmlwidgets'. This dual-layer architecture ensures smooth execution of synchronized multi-component 3D animations without framework degradation or controller loss.