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Tools for Approximate Bayesian Computation (ABC)
Implements several ABC algorithms for performing parameter estimation, model selection, and goodness-of-fit. Cross-validation tools are also available for measuring the accuracy of ABC estimates, and to calculate the misclassification probabilities of different models.
Visualize Data for Host and Viral Population from 'SMITIDstruct' using HTMLwidgets
Data Structure and Manipulations Tool for Host and Viral Population
Statistical Methods for Inferring Transmissions of Infectious Diseases from deep sequencing data (SMITID). It allow sequence-space-time host and viral population data storage, indexation and querying.
Functions to Make Surveys Processing Easier
Set of functions to make the processing and analysis of surveys easier : interactive shiny apps and addins for data recoding, contingency tables, dataset metadata handling, and several convenience functions.
Adaptation of Virtual Twins Method from Jared Foster
Research of subgroups in random clinical trials with binary outcome and two treatments groups. This is an adaptation of the Jared Foster method (< https://www.ncbi.nlm.nih.gov/pubmed/21815180>).
Estimation and Simulation for PDMPs
This package deals with the estimation of the jump rate for piecewise-deterministic Markov processes (PDMPs), from only one observation of the process within a long time. The main functions provide an estimate of this function. The state space may be discrete or continuous. The associated paper has been published in Scandinavian Journal of Statistics and is given in references. Other functions provide a method to simulate random variables from their (conditional) hazard rate, and then to simulate PDMPs.
Inference Using Simulation
Implements functions for simulation-based inference. In particular, implements functions to perform likelihood inference from data summaries whose distributions are simulated (Rousset et al. 2017
Population Genetic Data Analysis Using Genepop
Makes the Genepop software available in R. This software implements a mixture of traditional population genetic methods and some more focused developments: it computes exact tests for Hardy-Weinberg equilibrium, for population differentiation and for genotypic disequilibrium among pairs of loci; it computes estimates of F-statistics, null allele frequencies, allele size-based statistics for microsatellites, etc.; and it performs analyses of isolation by distance from pairwise comparisons of individuals or population samples.
GPL Palettes Copied from 'Gimp' and 'Inkscape'
C++ Classes to Embed R in C++ Applications
C++ classes to embed R in C++ applications A C++ class providing the R interpreter is offered by this package making it easier to have "R inside" your C++ application. As R itself is embedded into your application, a shared library build of R is required. This works on Linux, OS X and even on Windows provided you use the same tools used to build R itself. d Numerous examples are provided in the eight subdirectories of the examples/ directory of the installed package: standard, 'mpi' (for parallel computing), 'qt' (showing how to embed 'RInside' inside a Qt GUI application), 'wt' (showing how to build a "web-application" using the Wt toolkit), 'armadillo' (for 'RInside' use with 'RcppArmadillo') and 'eigen' (for 'RInside' use with 'RcppEigen'). The examples use 'GNUmakefile(s)' with GNU extensions, so a GNU make is required (and will use the 'GNUmakefile' automatically). 'Doxygen'-generated documentation of the C++ classes is available at the 'RInside' website as well.