This package provides a convenient interface to the staticrypt by Robin Moisson <https://github.com/robinmoisson/staticrypt>---'Node.js package for adding a password protection layer to static HTML pages. This package can be integrated into the post-render process of quarto documents to secure them with a password.

This package offers tools to create DNA barcode sets capable of correcting insertion, deletion, and substitution errors. Existing barcodes can be analyzed regarding their minimal, maximal and average distances between barcodes. Finally, reads that start with a (possibly mutated) barcode can be demultiplexed, i.e. assigned to their original reference barcode.

Radiance is a web application environment, which is sort of like a web framework, but more general, more flexible. It should let you write personal websites and generally deployable applications easily and in such a way that they can be used on practically any setup without having to undergo special adaptations.

This package contains the data employed in the vignette of the PathNet package. These data belong to the following publication: PathNet: A tool for pathway analysis using topological information. Dutta B, Wallqvist A, and Reifman J., Source Code for Biology and Medicine 2012 Sep 24;7(1):10.

Wraps the Python codecarbon package via reticulate to measure the energy consumption and estimated carbon emissions of R code. Provides a self-contained setup routine that installs codecarbon into a dedicated conda environment, and an R-facing tracker API for measuring a block of code or a longer-running session.

This package provides an R interface to the Copernicus Marine Service for downloading and accessing marine data. Integrates with the official copernicusmarine Python library through reticulate'. Requires Python 3.7+ and a free Copernicus Marine account. See <https://marine.copernicus.eu/> and <https://pypi.org/project/copernicusmarine/> for more information.

Create disposable R packages for testing. You can create, install and load multiple R packages with a single function call, and then unload, uninstall and destroy them with another function call. This is handy when testing how some R code or an R package behaves with respect to other packages.

Estimation of the sample univariate, cross and return time extremograms. The package can also adds empirical confidence bands to each of the extremogram plots via a permutation procedure under the assumption that the data are independent. Finally, the stationary bootstrap allows us to construct credible confidence bands for the extremograms.

Processing forest inventory data with methods such as simple random sampling, stratified random sampling and systematic sampling. There are also functions for yield and growth predictions and model fitting, linear and nonlinear grouped data fitting, and statistical tests. References: Kershaw Jr., Ducey, Beers and Husch (2016). <doi:10.1002/9781118902028>.

The vegan package includes several functions for adding features to ordination plots: ordiarrows(), ordiellipse(), ordihull(), ordispider() and ordisurf(). This package adds these same features to ordination plots made with ggplot2'. In addition, gg_ordibubble() sizes points relative to the value of an environmental variable.

This package provides functions to assess and test for heterogeneity in the utility of a surrogate marker with respect to a baseline covariate using censored (survival data), and to test for heterogeneity across multiple time points. More details are available in Parast et al (2024) <doi:10.1002/sim.10122>.

This package provides uniform testing procedures for existence and heterogeneity of threshold effects in high-dimensional nonparametric panel regression models. The package accompanies the paper Chen, Keilbar, Su and Wang (2023) "Inference on many jumps in nonparametric panel regression models". arXiv preprint <doi:10.48550/arXiv.2312.01162>.

Generates high-entropy integer synthetic populations from marginal and (optionally) seed data using quasirandom sampling, in arbitrary dimensionality (Smith, Lovelace and Birkin (2017) <doi:10.18564/jasss.3550>). The package also provides an implementation of the Iterative Proportional Fitting (IPF) algorithm (Zaloznik (2011) <doi:10.13140/2.1.2480.9923>).

This package provides access to MUI X Data Grid', a fast and extensible React data table and React data grid, with filtering, sorting, pagination, and more. Bundles the MIT-licensed community edition of the @mui/x-data-grid JavaScript library (the commercial Pro and Premium tiers are not included).

Creation and selection of N-way Partial Least Squares (NPLS) models. Selection of the optimal number of components can be done using ncrossreg(). NPLS was originally described by Rasmus Bro, see <doi:10.1002/%28SICI%291099-128X%28199601%2910%3A1%3C47%3A%3AAID-CEM400%3E3.0.CO%3B2-C>.

Social network analysis has become an essential tool in the study of complex systems. NetExplorer allows to visualize and explore complex systems. It is based on d3js library that brings 1) Graphical user interface; 2) Circular, linear, multilayer and force Layout; 3) Network live exploration and 4) SVG exportation.

This package implements the orthogonal reparameterization approach recommended by Lancaster (2002) to estimate dynamic panel models with fixed effects (and optionally: panel specific intercepts). The approach uses a likelihood-based estimator and produces estimates that are asymptotically unbiased as N goes to infinity, with a T as low as 2.

This package provides a collection of tools to explore the phylogenetic signal in univariate and multivariate data. The package provides functions to plot traits data against a phylogenetic tree, different measures and tests for the phylogenetic signal, methods to describe where the signal is located and a phylogenetic clustering method.

This package provides a tool for working with SQLite databases. SQLite has some idiosyncrasies and limitations that impose some hurdles to the R developer who is using this database as a repository. For instance, SQLite doesn't have a date type and sqliteutils has some functions to deal with that.

This package provides tools to define factorial simulation conditions and generate binary or ordinal item responses under common-factor and probit graded response model parameterizations. Supports multivariate normal and correlated gamma latent traits, reproducible replications, parameter conversion, and structured storage of generated datasets. The graded response model follows Samejima (1969).

This package provides the means to convert multiqc_data.json files, produced by the wonderful MultiQC tool, into tidy data frames for downstream analysis in R. This analysis might involve cohort analysis, quality control visualisation, change-point detection, statistical process control, clustering, or any other type of quality analysis.

Streamlines the analysis of clinical data by automatically selecting appropriate statistical descriptions and inference methods based on variable types. For method details see Motulsky H J (2016) <https://www.graphpad.com/guides/prism/10/statistics/index.htm> and d'Agostino R B (1971) <doi:10.1093/biomet/58.2.341>.

This package provides tools for designing virus protein panels through sequence clustering and protein sequence analysis. The package includes functionality for filtering sequences, removing redundancy, identifying outliers, clustering sequences, and calculating entropy to evaluate clustering quality. A publication describing these methods is in preparation and will be added once available.

Easily and flexibly insert Font Awesome icons into R Markdown documents and Shiny apps. These icons can be inserted into HTML content through inline SVG tags or i tags. There is also a utility function for exporting Font Awesome icons as PNG images for those situations where raster graphics are needed.