Computes probabilities of the bivariate normal distribution in a vectorized R function (Drezner & Wesolowsky, 1990, <doi:10.1080/00949659008811236>).

Generates a position balanced or nearly position balanced block design with given parameters. This package can also convert a given proper and equireplicate block design into a position balanced or nearly position balanced block design.

An assortment of functions that could be useful in analyzing data from psychophysical experiments. It includes functions for calculating d from several different experimental designs, links for m-alternative forced-choice (mafc) data to be used with the binomial family in glm (and possibly other contexts) and self-Start functions for estimating gamma values for CRT screen calibrations.

Permutation (randomisation) test for single-case phase design data with two phases (e.g., pre- and post-treatment). Correction for dependency of observations is done through stepwise resampling the time series while varying the distance between observations. The required distance 0,1,2,3.. is determined based on repeated dependency testing while stepwise increasing the distance. In preparation: Vroegindeweij et al. "A Permutation distancing test for single-case observational AB phase design data: A Monte Carlo simulation study".

An R package for polygenic trait analysis.

Speeds up the process of loading raw data from MBA (Multiplex Bead Assay) examinations, performs quality control checks, and automatically normalises the data, preparing it for more advanced, downstream tasks. The main objective of the package is to create a simple environment for a user, who does not necessarily have experience with R language. The package is developed within the project of the same name - PvSTATEM', which is an international project aiming for malaria elimination.

This package provides profile likelihoods for a parameter of interest in commonly used statistical models. The models include linear models, generalized linear models, proportional odds models, linear mixed-effects models, and linear models for longitudinal responses fitted by generalized least squares. The package also provides plots for normalized profile likelihoods as well as the maximum profile likelihood estimates and the kth likelihood support intervals.

Facilitates the testing of causal relationships among lineage-pair traits in a phylogenetically informed context. Lineage-pair traits are characters that are defined for pairs of lineages instead of individual taxa. Examples include the strength of reproductive isolation, range overlap, competition coefficient, diet niche similarity, and relative hybrid fitness. Users supply a lineage-pair dataset and a phylogeny. phylopairs calculates a covariance matrix for the pairwise-defined data and provides built-in models to test for relationships among variables while taking this covariance into account. Bayesian sampling is run through built-in Stan programs via the rstan package. The various models and methods that this package makes available are described in Anderson et al. (In Review), Coyne and Orr (1989) <doi:10.1111/j.1558-5646.1989.tb04233.x>, Fitzpatrick (2002) <doi:10.1111/j.0014-3820.2002.tb00860.x>, and Castillo (2007) <doi:10.1002/ece3.3093>.

Download economic and financial time series from public sources, including the St Louis Fed's FRED system, Yahoo Finance, the US Bureau of Labor Statistics, the US Energy Information Administration, the World Bank, Eurostat, the European Central Bank, the Bank of England, the UK's Office of National Statistics, Deutsche Bundesbank, and INSEE.

Compute the price of different types of call using different methods. The types available are Vanilla European Calls, Vanilla American Calls and American Digital Calls. Available methods are Montecarlo Simulation, Montecarlo Simulation with Antithetic Variates, Black-Scholes and the Binary Tree.

This package provides functions to simplify the PatentsView API (<https://patentsview.org/apis/purpose>) query language, send GET and POST requests to the API's seven endpoints, and parse the data that comes back.

This package provides functions and data sets for the text Probability and Statistics with R, Second Edition.

Makes output files from select PreSens Fiber Optic Oxygen Transmitters easier to work with in R. See <http://www.presens.de> for more information about PreSens (Precision Sensing GmbH). Note: this package is neither created nor maintained by PreSens.

An engaging collection of datasets from Portland Parks and Recreation. The city of Portland inventoried every tree in over 170 parks and along the streets in 96 neighborhoods.

Easily visualize and animate tabledap and griddap objects obtained via the rerddap package in a simple one-line command, using either base graphics or ggplot2 graphics. plotdap handles extracting and reshaping the data, map projections and continental outlines. Optionally the data can be animated through time using the gganmiate package.

This package provides tools for Bayesian estimation of meta-analysis models that account for publications bias or p-hacking. For publication bias, this package implements a variant of the p-value based selection model of Hedges (1992) <doi:10.1214/ss/1177011364> with discrete selection probabilities. It also implements the mixture of truncated normals model for p-hacking described in Moss and De Bin (2019) <arXiv:1911.12445>.

Estimates two-level multilevel linear model and two-level multivariate linear multilevel model with weights following Probability Weighted Iterative Generalised Least Squares approach. For details see Veiga et al.(2014) <doi:10.1111/rssc.12020>.

This package provides functions to simulate point prevalence studies (PPSs) of healthcare-associated infections (HAIs) and to convert prevalence to incidence in steady state setups. Companion package to the preprint Willrich et al., From prevalence to incidence - a new approach in the hospital setting; <doi:10.1101/554725> , where methods are explained in detail.

Proportional hazards estimation in the presence of a partially monotone likelihood has difficulties, in that finite estimators do not exist. These difficulties are related to those arising from logistic and multinomial regression. References for methods are given in the separate function documents. Supported by grant NSF DMS 1712839.

This package contains utilities for the analysis of post-translational modifications (PTMs) in proteins, with particular emphasis on the sulfoxidation of methionine residues. Features include the ability to download, filter and analyze data from the sulfoxidation database MetOSite'. Utilities to search and characterize S-aromatic motifs in proteins are also provided. In addition, functions to analyze sequence environments around modifiable residues in proteins can be found. For instance, ptm allows to search for amino acids either overrepresented or avoided around the modifiable residues from the proteins of interest. Functions tailored to test statistical hypothesis related to these differential sequence environments are also implemented. Further and detailed information regarding the methods in this package can be found in (Aledo (2020) <https://metositeptm.com>).

This package provides a framework for defining pipelines of functions for applying data transformations, model estimation and inverse-transformations, resulting in predicted value generation (or model-scoring) functions that automatically apply the entire pipeline of functions required to go from input to predicted output.

Calculate the Bayesian posterior/predictive probability and determine the sample size and stopping boundaries for single-arm Phase II design.

Build and manipulate partially ordered sets (posets), to perform some data analysis on them and to implement multi-criteria decision making procedures. Several efficient ways for generating linear extensions are implemented, together with functions for building mutual ranking probabilities, incomparability, dominance and separation scores (Fattore, M., De Capitani, L., Avellone, A., Suardi, A. (2024). A fuzzy posetic toolbox for multi-criteria evaluation on ordinal data systems. ANNALS OF OPERATIONS RESEARCH <doi:10.1007/s10479-024-06352-3>).

Spectral emission data for some frequently used lamps including bulbs and flashlights based on led emitting diodes (LEDs) but excluding LEDs available as electronic components. Original spectral irradiance data for incandescent-, LED- and discharge lamps are included. They are complemented by data on the effect of temperature on the emission by fluorescent tubes. Part of the r4photobiology suite, Aphalo P. J. (2015) <doi:10.19232/uv4pb.2015.1.14>.