Shiny apps can often make use of the same key elements, this package provides modules for common tasks (data upload, wrangling data, figure generation and saving the app state), and also a framework for developing. These modules can react and interact as well as generate code to create reproducible analyses.

Access small example datasets from Luquillo, a ForestGEO site in Puerto Rico (<https://forestgeo.si.edu/sites/north-america/luquillo>).

The Clutter model is a significant forest growth simulation tool. Grounded on individual trees and comprehensively considering factors such as competition among trees and the impact of environmental elements on growth, it can accurately reflect the growth process of forest stands. It can be applied in areas like forest resource management, harvesting planning, and ecological research. With the help of the Clutter model, people can better understand the dynamic changes of forests and provide a scientific basis for rational forest management and protecting the ecological environment. This R package can effectively realize the construction of forest growth and harvest models based on the Clutter model and achieve optimized forest management.References: Farias A, Soares C, Leite H et al(2021)<doi:10.1007/s10342-021-01380-1>. Guera O, Silva J, Ferreira R, et al(2019)<doi:10.1590/2179-8087.038117>.

For binomial outcome data Alternate Binomial Distributions and Binomial Mixture Distributions are fitted when overdispersion is available.

This package provides a suite of supervised classifiers for functional data based on the concept of signed depth. The core pipeline computes Fraiman-Muniz (FM) functional depth in either its Tukey or Simplicial variant, derives a signed depth by comparing each curve to a reference median curve via the signed distance integral, and feeds the resulting scalar summary into several classifiers: the k-Ranked Nearest Neighbour (k-RNN) rule, a moving-average smoother, a kernel-density Bayes rule, logistic regression on signed depth and distance to the mode, and a generalised additive model (GAM) classifier. Cross-validation routines for tuning the neighbourhood size k and parametric bootstrap confidence intervals are also included.

This package provides functions for calculating various measures of foreign policy similarity or association commonly used in the study of international relations. These include Signorino and Ritter's S statistic (weighted and unweighted), Cohen's weighted kappa, Scott's pi, and Kendall's tau-b. The package facilitates the generation of dyadic similarity scores for empirical analyses and can also serve as an educational resource for understanding how such measures are derived.

This package implements the Fourier Bootstrap Autoregressive Distributed Lag (FBARDL) bounds testing approach for cointegration analysis. Combines the Pesaran, Shin & Smith (2001) <doi:10.1002/jae.616> ARDL bounds testing framework with Fourier terms to capture structural breaks following Yilanci, Bozoklu & Gorus (2020) <doi:10.1080/00036846.2019.1686454>, and bootstrap critical values based on McNown, Sam & Goh (2018) <doi:10.1080/00036846.2017.1366643> and Bertelli, Vacca & Zoia (2022) <doi:10.1016/j.econmod.2022.105987>. Features include automatic lag selection via AIC/BIC, optimal Fourier frequency selection by minimum SSR, long-run and short-run coefficient estimation, diagnostic tests, and dynamic multiplier analysis.

Defines a collection of functions to compute average power and sample size for studies that use the false discovery rate as the final measure of statistical significance. A three-rectangle approximation method of a p-value histogram is proposed to derive a formula to compute the statistical power for analyses that involve the FDR. The methodology paper of this package is under review.

Fuzzy forests, a new algorithm based on random forests, is designed to reduce the bias seen in random forest feature selection caused by the presence of correlated features. Fuzzy forests uses recursive feature elimination random forests to select features from separate blocks of correlated features where the correlation within each block of features is high and the correlation between blocks of features is low. One final random forest is fit using the surviving features. This package fits random forests using the randomForest package and allows for easy use of WGCNA to split features into distinct blocks. See D. Conn, Ngun, T., C. Ramirez, and G. Li (2019) <doi:10.18637/jss.v091.i09> for further details.

Wrapper functions that interface with Freesurfer <https://surfer.nmr.mgh.harvard.edu/>, a powerful and commonly-used neuroimaging software, using system commands. The goal is to be able to interface with Freesurfer completely in R, where you pass R objects of class nifti', implemented by package oro.nifti', and the function executes an Freesurfer command and returns an R object of class nifti or necessary output.

Implement frequent-directions algorithm for efficient matrix sketching. (Edo Liberty (2013) <doi:10.1145/2487575.2487623>).

Three methods are implemented in R to facilitate the aggregations of flags in official statistics. From the underlying flags the highest in the hierarchy, the most frequent, or with the highest total weight is propagated to the flag(s) for EU or other aggregates. Below there are some reference documents for the topic: <https://sdmx.org/wp-content/uploads/CL_OBS_STATUS_v2_1.docx>, <https://sdmx.org/wp-content/uploads/CL_CONF_STATUS_1_2_2018.docx>, <http://ec.europa.eu/eurostat/data/database/information>, <http://www.oecd.org/sdd/33869551.pdf>, <https://sdmx.org/wp-content/uploads/CL_OBS_STATUS_implementation_20-10-2014.pdf>.

FLR algorithm for classification.

For including external figures into an assembled patchwork. This enables the creation of more complex figures that include images alongside plots.

Data-driven fMRI denoising with projection scrubbing (Pham et al (2022) <doi:10.1016/j.neuroimage.2023.119972>). Also includes routines for DVARS (Derivatives VARianceS) (Afyouni and Nichols (2018) <doi:10.1016/j.neuroimage.2017.12.098>), motion scrubbing (Power et al (2012) <doi:10.1016/j.neuroimage.2011.10.018>), aCompCor (anatomical Components Correction) (Muschelli et al (2014) <doi:10.1016/j.neuroimage.2014.03.028>), detrending, and nuisance regression. Projection scrubbing is also applicable to other outlier detection tasks involving high-dimensional data.

This package provides functions for importing, creating, editing and exporting FSK files <https://foodrisklabs.bfr.bund.de/fskx-food-safety-knowledge-exchange-format/> using the R programming environment. Furthermore, it enables users to run simulations contained in the FSK files and visualize the results.

Frequentist assisted by Bayes (FAB) confidence interval construction. See Adaptive multigroup confidence intervals with constant coverage by Yu and Hoff <DOI:10.1093/biomet/asy009> and Exact adaptive confidence intervals for linear regression coefficients by Hoff and Yu <DOI:10.1214/18-EJS1517>.

Computes unidimensional and multidimensional Reciprocity and Inaccuracy indices. These indices are applicable to common heterostylous populations and to any other type of stylar dimorphic and trimorphic populations, such as in enantiostylous and three-dimensional heterostylous plants. Simón-Porcar, V., A. J. Muñoz-Pajares, J. Arroyo, and S. D. Johnson. (in press) "FlowerMate: multidimensional reciprocity and inaccuracy indices for style-polymorphic plant populations.".

Modelizations and previsions functions for Functional AutoRegressive processes using nonparametric methods: functional kernel, estimation of the covariance operator in a subspace, ...

This package implements the Factor-Augmented Clustering Tree (FACT) algorithm for clustering time series data. The method constructs a classification tree where splits are determined by covariates, and the splitting criterion is based on a group factor model representation of the time series within each node. Both threshold-based and permutation-based tests are supported for splitting decisions, with an option for parallel computation. For methodological details, see Hu, Li, Luo, and Wang (2025, in preparation), Factor-Augmented Clustering Tree for Time Series.

An interface to the Fish Tree of Life API to download taxonomies, phylogenies, fossil calibrations, and diversification rate information for ray-finned fishes.

Small set of functions designed to speed up the computation of certain matrix operations that are commonly used in statistics and econometrics. It provides efficient implementations for the computation of several structured matrices, matrix decompositions and statistical procedures, many of which have minimal memory overhead. Furthermore, the package provides interfaces to C code callable by another C code from other R packages.

This package provides core functions and utilities for packages and other code developed by Jordan Mark Barbone.

Perform fuzzy joins on data frames using approximate string matching. Implements inner, left, right, full, semi, and anti joins with string distance metrics from the stringdist package, including Optimal String Alignment, Levenshtein, Damerau-Levenshtein, Jaro-Winkler, q-gram, cosine, Jaccard, and Soundex. Uses a data.table backend plus compiled C++ result assembly to reduce overhead in large joins, while adaptive candidate planning avoids unnecessary distance evaluations in single-column string joins. Suitable for reconciling misspellings, inconsistent labels, and other near-match identifiers while optionally returning the computed distance for each match.