Modelling Reproduction and Survival Data in Ecotoxicology

Advanced methods for a valuable quantitative environmental risk assessment using Bayesian inference of survival and reproduction Data. Among others, it facilitates Bayesian inference of the general unified threshold model of survival (GUTS). See our companion paper Baudrot and Charles (2021) , as well as complementary details in Baudrot et al. (2018) and Delignette-Muller et al. (2017) .

'VigiBase' Pharmacovigilance Database Toolbox

Perform the analysis of the World Health Organization (WHO) Pharmacovigilance database 'VigiBase' (Extract Case Level version), < https://who-umc.org/> e.g., load data, perform data management, disproportionality analysis, and descriptive statistics. Intended for pharmacovigilance routine use or studies. This package is NOT supported nor reflect the opinion of the WHO, or the Uppsala Monitoring Centre. Disproportionality methods are described by Norén et al (2013) .

Visualisation of Raw or Segmented Accelerometer Data

Creates visualisations in two and three dimensions of simulated data based on detected segments or raw accelerometer data.

A Modular Framework for Statistical Simulations in R

An open-source R package for structuring, maintaining, running, and debugging statistical simulations on both local and cluster-based computing environments.See full documentation at < https://avi-kenny.github.io/SimEngine/>.

Analysis of Discretely Observed Linear Birth-and-Death(-and-Immigration) Markov Chains

Provides Frequentist (EM) and Bayesian (MCMC) Methods for Inference of Birth-Death-Immigration Markov Chains.

GPU Functions for R Objects

Provides GPU enabled functions for 'R' objects in a simple and approachable manner. New 'gpu*' and 'vcl*' classes have been provided to wrap typical 'R' objects (e.g. vector, matrix), in both host and device spaces, to mirror typical 'R' syntax without the need to know 'OpenCL'.

All Hierarchical or Graphical Models for Generalized Linear Model

Find all hierarchical models of specified generalized linear model with information criterion (AIC, BIC, or AICc) within specified cutoff of minimum value. Alternatively, find all such graphical models. Use branch and bound algorithm so we do not have to fit all models.

Get or Set UNIX Niceness

Get or set UNIX priority (niceness) of running R process.

Fuzzy Rank Tests and Confidence Intervals

Does fuzzy tests and confidence intervals (following Geyer and Meeden, Statistical Science, 2005, ) for sign test and Wilcoxon signed rank and rank sum tests.

Power Calculations for GxE and GxG Interactions for GWAS

Analytical power calculations for GxE and GxG interactions for case-control studies of candidate genes and genome-wide association studies (GWAS). This includes power calculation for four two-step screening and testing procedures. It can also calculate power for GxE and GxG without any screening.