Computes asymmetric LD measures (ALD) for multi-allelic genetic data. These measures are identical to the correlation measure (r) for bi-allelic data.

Predicts antimicrobial peptides using random forests trained on the n-gram encoded peptides. The implemented algorithm can be accessed from both the command line and shiny-based GUI. The AmpGram model is too large for CRAN and it has to be downloaded separately from the repository: <https://github.com/michbur/AmpGramModel>.

This package provides an algebra over probability distributions enabling composition, sampling, and automatic simplification to closed forms. Supports normal, exponential, multivariate normal, and empirical distributions with operations like addition and subtraction that automatically simplify when mathematical identities apply (e.g., the sum of independent normal distributions is normal). Uses S3 classes for distributions and R6 for support objects.

High performance variant of apply() for a fixed set of functions. Considerable speedup of this implementation is a trade-off for universality: user defined functions cannot be used with this package. However, about 20 most currently employed functions are available for usage. They can be divided in three types: reducing functions (like mean(), sum() etc., giving a scalar when applied to a vector), mapping function (like normalise(), cumsum() etc., giving a vector of the same length as the input vector) and finally, vector reducing function (like diff() which produces result vector of a length different from the length of input vector). Optional or mandatory additional arguments required by some functions (e.g. norm type for norm()) can be passed as named arguments in ...'.

With the functions in this package you can check the validity of the Greek Tax Identification Number (AFM) and the Greek Personal Number (PA) <https://pa.gov.gr>. The PA is a new universal ID for Greek citizens across all public services and it is to replace older numbers issued by various Greek state agencies. Its format is a 12-character ID consisting of three alphanumeric characters followed by the nine numerical digits of the AFM.

Sample of hydro-meteorological datasets extracted from the CAMELS-FR French database <doi:10.57745/WH7FJR>. It provides metadata and catchment-scale aggregated hydro-meteorological time series on a pool of French catchments for use by the airGR packages.

An interface to container functionality in Microsoft's Azure cloud: <https://azure.microsoft.com/en-us/products/category/containers/>. Manage Azure Container Instance (ACI), Azure Container Registry (ACR) and Azure Kubernetes Service (AKS) resources, push and pull images, and deploy services. On the client side, lightweight shells to the docker', docker-compose', kubectl and helm commandline tools are provided. Part of the AzureR family of packages.

Visualize clonal expansion via circle-packing. APackOfTheClones extends scRepertoire to produce a publication-ready visualization of clonal expansion at a single cell resolution, by representing expanded clones as differently sized circles. The method was originally implemented by Murray Christian and Ben Murrell in the following immunology study: Ma et al. (2021) <doi:10.1126/sciimmunol.abg6356>.

Alternative and fast algorithms for the analysis of receiver operating characteristics curves (ROC curves) as described in Thomas et al. (2017) <doi:10.1186/s41512-017-0017-y> and Thomas et al. (2023) <doi:10.1016/j.ajogmf.2023.101110>.

Advanced sports performance analysis and modeling for activity data retrieved from Strava'. This package focuses on applying established sports science models and statistical methods to gain deeper insights into training load, performance prediction, recovery status, and identifying key performance factors, extending basic data analysis capabilities.

This package contains functions to help create an Analysis Results Dataset. The dataset follows industry recommended structure. The dataset can be created in multiple passes, using different data frames as input. Analysis Results Datasets are used in the pharmaceutical and biotech industries to capture analysis in a common tabular data structure.

This package provides a number of functions to access the National Energy Research Laboratory Alternate Fuel Locator API <https://developer.nrel.gov/docs/transportation/alt-fuel-stations-v1/>. The Alternate Fuel Locator shows the location of alternate fuel stations in the United States and Canada. This package also includes the data from the US Department of Energy Alternate Fuel database as a data set.

The adapted pair correlation function transfers the concept of the pair correlation function from point patterns to patterns of objects of finite size and irregular shape (e.g. lakes within a country). The pair correlation function describes the spatial distribution of objects, e.g. random, aggregated or regularly spaced. This is a reimplementation of the method suggested by Nuske et al. (2009) <doi:10.1016/j.foreco.2009.09.050> using the library GEOS <doi:10.5281/zenodo.11396894>.

This package provides new_partialised() and new_composed(), which extend partial() and compose() functions of purrr to make it easier to extract and replace arguments and functions. It also has additional adverbial functions.

Semi-distributed Precipitation-Runoff Modeling based on airGR package models integrating human infrastructures and their managements.

We developed a lightweight machine learning tool for RNA profiling of acute lymphoblastic leukemia (ALL), however, it can be used for any problem where multiple classes need to be identified from multi-dimensional data. The methodology is described in Makinen V-P, Rehn J, Breen J, Yeung D, White DL (2022) Multi-cohort transcriptomic subtyping of B-cell acute lymphoblastic leukemia, International Journal of Molecular Sciences 23:4574, <doi:10.3390/ijms23094574>. The classifier contains optimized mean profiles of the classes (centroids) as observed in the training data, and new samples are matched to these centroids using the shortest Euclidean distance. Centroids derived from a dataset of 1,598 ALL patients are included, but users can train the models with their own data as well. The output includes both numerical and visual presentations of the classification results. Samples with mixed features from multiple classes or atypical values are also identified.

Fits Modern Analogue Technique and Weighted Averaging transfer function models for prediction of environmental data from species data, and related methods used in palaeoecology.

This package provides tools for simulating data generated by direct observation recording. Behavior streams are simulated based on an alternating renewal process, given specified distributions of event durations and interim times. Different procedures for recording data can then be applied to the simulated behavior streams. Functions are provided for the following recording methods: continuous duration recording, event counting, momentary time sampling, partial interval recording, whole interval recording, and augmented interval recording.

This package contains data from an observational study concerning possible effects of light daily alcohol consumption on survival and on HDL cholesterol. It also replicates various simple analyses in Rosenbaum (2025a) <doi:10.1080/09332480.2025.2473291>. Finally, it includes new R code in wgtRankCef() that implements and replicates a new method for constructing evidence factors in observational block designs.

Package to incorporate change point analysis in ARIMA forecasting.

This package provides functions to compute summary scores (besides proprietary ones) reported in the tabulated data resource that is released by the Adolescent Brain Cognitive Development (ABCD) study.

This package provides easy access to the AviList Global Avian Checklist, the first unified global bird taxonomy that harmonizes previous differences between International Ornithological Committee ('IOC'), Clements', and BirdLife checklists. This package contains the complete AviList dataset as R data objects ready for ornithological research and analysis. For more details see AviList Core Team (2025) <doi:10.2173/avilist.v2025>.

This package provides methods (<doi:10.7717/peerj.11534>) are provided of calibrating and predicting shifts in allele frequencies through redundancy analysis ('vegan::rda()') and generalized additive models ('mgcv::gam()'). Visualization functions for predicted changes in allele frequencies include shift.dot.ggplot()', shift.pie.ggplot()', shift.moon.ggplot()', shift.waffle.ggplot() and shift.surf.ggplot() that are made with input data sets that are prepared by helper functions for each visualization method. Examples in the documentation show how to prepare animated climate change graphics through a time series with the gganimate package. Function amova.rda() shows how Analysis of Molecular Variance can be directly conducted with the results from redundancy analysis.

Easily estimate the introduction rates of alien species given first records data. It specializes in addressing the role of sampling on the pattern of discoveries, thus providing better estimates than using Generalized Linear Models which assume perfect immediate detection of newly introduced species.