This package provides a dataset of predefined color palettes based on the Star Trek science fiction series, associated color palette functions, and additional functions for generating customized palettes that are on theme. The package also offers functions for applying the palettes to plots made using the ggplot2 package.

Generic methods for parameter tuning of classification algorithms using multiple scoring functions (Muessel et al. (2012), <doi:10.18637/jss.v046.i05>).

Partially penalized versions of specific transformation models implemented in package mlt'. Available models include a fully parametric version of the Cox model, other parametric survival models (Weibull, etc.), models for binary and ordered categorical variables, normal and transformed-normal (Box-Cox type) linear models, and continuous outcome logistic regression. Hyperparameter tuning is facilitated through model-based optimization functionalities from package mlrMBO'. The accompanying vignette describes the methodology used in tramnet in detail. Transformation models and model-based optimization are described in Hothorn et al. (2019) <doi:10.1111/sjos.12291> and Bischl et al. (2016) <doi:10.48550/arXiv.1703.03373>, respectively.

Combine a list of taxa with a phylogeny to generate a starting tree for use in total evidence dating analyses.

Simple tabulation should be dead simple. This package is an opinionated approach to easy tabulations while also providing exact numbers and allowing for re-usability. This is achieved by providing tabulations as data.frames with columns for values, optional variable names, frequency counts including and excluding NAs and percentages for counts including and excluding NAs. Also values are automatically sorted by in decreasing order of frequency counts to allow for fast skimming of the most important information.

Core parts of the C API of R are wrapped in a C++ namespace via a set of inline functions giving a tidier representation of the underlying data structures and functionality using a header-only implementation without additional dependencies.

This package provides a constrained two-dimensional Delaunay triangulation package providing both triangulation and generation of voronoi mosaics of irregular spaced data. Please note that most of the functions are now also covered in package interp, which is a re-implementation from scratch under a free license based on a different triangulation algorithm.

Computation of effects under linear, logistic and Poisson regression models with transformed variables. Logarithm and power transformations are allowed. Effects can be displayed both numerically and graphically in both the original and the transformed space of the variables. The methods are described in Barrera-Gomez and Basagana (2015) <doi:10.1097/EDE.0000000000000247>.

Builds tables with customizable rows. Users can specify the type of data to use for each row, as well as how to handle missing data and the types of comparison tests to run on the table columns.

This package provides functions to estimate the insertion and deletion rates of transposable element (TE) families. The estimation of insertion rate consists of an improved estimate of the age distribution that takes into account random mutations, and an adjustment by the deletion rate. A hypothesis test for a uniform insertion rate is also implemented. This package implements the methods proposed in Dai et al (2018).

The eigenvalues of observed symmetric matrices are often of intense scientific interest. This package offers single sample tests for the eigenvalues of the population mean or the eigenvalue-multiplicity of the population mean. For k-samples, this package offers tests for equal eigenvalues between samples. Included is support for matrices with constraints common to geophysical tensors (constant trace, sum of squared eigenvalues, or both) and eigenvectors are usually considered nuisance parameters. Pivotal bootstrap methods enable these tests to have good performance for small samples (n=15 for 3x3 matrices). These methods were developed and studied by Hingee, Scealy and Wood (2026, <doi:10.1080/01621459.2025.2606381>). Also available is a 2-sample test using a Gaussian orthogonal ensemble approximation and an eigenvalue-multiplicity test that assumes orthogonally-invariant covariance.

Statistical exploration of textual corpora using several methods from French Textometrie (new name of Lexicometrie') and French Data Analysis schools. It includes methods for exploring irregularity of distribution of lexicon features across text sets or parts of texts (Specificity analysis); multi-dimensional exploration (Factorial analysis), etc. Those methods are used in the TXM software.

This package provides a set of tools for managing time-series data, with a particular emphasis on defining various frequency types such as daily and weekly. It also includes functionality for converting data between different frequencies.

This package provides tools for translating environmental change into organismal response. Microclimate models to vertically scale weather station data to organismal heights. The biophysical modeling tools include both general models for heat flows and specific models to predict body temperatures for a variety of ectothermic taxa. Additional functions model and temporally partition air and soil temperatures and solar radiation. Utility functions estimate the organismal and environmental parameters needed for biophysical ecology. TrenchR focuses on relatively simple and modular functions so users can create transparent and flexible biophysical models. Many functions are derived from Gates (1980) <doi:10.1007/978-1-4612-6024-0> and Campbell and Norman (1988) <isbn:9780387949376>.

Presentation-quality tables are displayed as plots on an R graphics device. Although there are other packages that format tables for display, this package is unique in combining two features: (a) It is aware of the logical structure of the table being presented, and makes use of that for automatic layout and styling of the table. This avoids the need for most manual adjustments to achieve an attractive result. (b) It displays tables using ggplot2 graphics. Therefore a table can be presented anywhere a graph could be, with no more effort. External software such as LaTeX or HTML or their viewers is not required. The package provides a full set of tools to control the style and appearance of tables, including titles, footnotes and reference marks, horizontal and vertical rules, and spacing of rows and columns. Methods are included to display matrices; data frames; tables created by R's ftable(), table(), and xtabs() functions; and tables created by the tables and xtable packages. Methods can be added to display other table-like objects. A vignette is included that illustrates usage and options available in the package.

Estimation of transition probabilities for the illness-death model and or the three-state progressive model.

Estimation of the survivor average causal effect under outcomes truncated by death, which requires the existence of a substitution variable. It can be applied to both experimental and observational data.

Facilities to work with vector and raster data in efficient repeatable and systematic work flow. Missing functionality in existing packages is included here to allow extraction from raster data with simple features and Spatial types and to make extraction consistent and straightforward. Extract cell numbers from raster data and return the cells as a data frame rather than as lists of matrices or vectors. The functions here allow spatial data to be used without special handling for the format currently in use.

Integrates several popular high-dimensional methods based on Linear Discriminant Analysis (LDA) and provides a comprehensive and user-friendly toolbox for linear, semi-parametric and tensor-variate classification as mentioned in Yuqing Pan, Qing Mai and Xin Zhang (2019) <arXiv:1904.03469>. Functions are included for covariate adjustment, model fitting, cross validation and prediction.

This groundbreaking technical indicator directly integrates volatility into price averaging by weighting median range-bound prices using the True Range. Unlike conventional metrics such as TWAP (Time-Weighted Average Price), which focuses solely on time, or VWAP (Volume-Weighted Average Price), which emphasizes volume, TrueWAP captures fluctuating market behavior by reflecting true price movement within high/low performance boundaries.

Htmlwidget of Tippyjs to add tooltips to Shiny apps and R markdown documents.

This package provides functions that can be used to calculate time-dependent state and parameter sensitivities for both continuous- and discrete-time deterministic models. See Ng et al. (2023) <doi:10.1086/726143> for more information about time-dependent sensitivity analysis.

Convert T Cell Receptor (TCR) gene names between the 10X Genomics, Adaptive Biotechnologies, and ImMunoGeneTics (IMGT) nomenclatures.

This package provides a set of functions that allow users for styling their R code according to the tidyverse style guide. The package uses a native Rust implementation to ensure the highest performance. Learn more about tergo at <https://rtergo.pagacz.io>.