General/Misc
R package optimParallel
optimParallel: an R package, that provides parallel versions of the gradient-based optim() methods. The main function of the package is optimParallel(), which has the same usage and output as optim(). Using optimParallel() can significantly reduce the optimization time.
A stable version of the package is posted on CRAN, a development version is posted here.
R package dotCall64
dotCall64: Enhanced Foreign Function Interface Supporting Long Vectors.
An alternative version of .C() and .Fortran() supporting long vectors and 64-bit integer type arguments. The provided interface .C64() features mechanisms the avoid unnecessary copies of read-only or write-only arguments. This makes it a convenient and fast interface to C/C++ and Fortran code.
A stable version of the package is posted on CRAN, a development version is posted here.
R package PRSim
Provides a simulation framework to simulate streamflow time series with similar main characteristics as observed data. These characteristics include the distribution of daily streamflow values and their temporal correlation as expressed by short- and long-range dependence. The approach is based on the randomization of the phases of the Fourier transform. We further use the flexible four-parameter Kappa distribution, which allows for the extrapolation to yet unobserved low and high flows.
A stable version of the package is posted on CRAN, a development version is posted here.
R package OCNet
Tools to generate and analyze Optimal Channel Networks (OCNs): oriented spanning trees reproducing all scaling features characteristic of real, natural river networks. As such, they can be used in a variety of numerical experiments in the fields of hydrology, ecology and epidemiology.
A stable version of the package is posted on CRAN, a development version is posted here.
R package varrank
varrank: Heuristics Tools Based on Mutual Information for Variable Ranking. A computational toolbox of heuristics approaches for performing variable ranking and feature selection based on mutual information well adapted for multivariate system epidemiology datasets. The core function is a general implementation of the minimum redundancy maximum relevance model. Variables ranking can be learned with a sequential forward/backward search algorithm. The two main problems that can be addressed by this package is the selection of the most representative variable within a group of variables of interest (i.e. dimension reduction) and variable ranking with respect to a set of features of interest.
Webpage (based on pkgdown); a stable version of the package is posted on CRAN.
R package eggCounts
eggCounts: An R package to assess anthelmintic efficacy using Bayesian hierarchical models for faecal egg count data. We have implemented a new Bayesian inference approach through Stan MCMC sampling scheme. Notice that older version did have some issues with the unpaired setting.
A stable version of the package is posted on CRAN.
Web interface to eggCounts (shiny web interface in a new Tab)
R package gsbDesign
gsbDesign: An R package to evaluate group sequential operating characteristics for clinical, Bayesian two-arm trials with known Sigma and normal endpoints.
A stable version of the package is posted on CRAN.