Interface to the 'Open Tree of Life' API

An interface to the 'Open Tree of Life' API to retrieve phylogenetic trees, information about studies used to assemble the synthetic tree, and utilities to match taxonomic names to 'Open Tree identifiers'. The 'Open Tree of Life' aims at assembling a comprehensive phylogenetic tree for all named species.

Multi-Fidelity Emulator for Computer Experiments with Tunable Fidelity Levels

Multi-Fidelity emulator for data from computer simulations of the same underlying system but at different input locations and fidelity level, where both the input locations and fidelity level can be continuous. Active Learning can be performed with an implementation of the Integrated Mean Square Prediction Error (IMSPE) criterion developed by Boutelet and Sung (2025, ).

Working with Dynamic Models for Agriculture and Environment

R package accompanying the book Working with dynamic models for agriculture and environment, by Daniel Wallach (INRA), David Makowski (INRA), James W. Jones (U.of Florida), Francois Brun (ACTA). 3rd edition 2018-09-27.

Examples using 'Rcpp' to Interface R and C++

Examples for Seamless R and C++ integration The 'Rcpp' package contains a C++ library that facilitates the integration of R and C++ in various ways. This package provides some usage examples. Note that the documentation in this package currently does not cover all the features in the package. The site < https://gallery.rcpp.org> regroups a large number of examples for 'Rcpp'.

'Rcpp' Bindings for the Boost Date_Time Library

Access to Boost Date_Time functionality for dates, durations (both for days and date time objects), time zones, and posix time ('ptime') is provided by using 'Rcpp modules'. The posix time implementation can support high-resolution of up to nano-second precision by using 96 bits (instead of 64 with R) to present a 'ptime' object (but this needs recompilation with a #define set).

Simple but Efficient Rowwise Jobs

Creating efficiently new column(s) in a data frame (including tibble) by applying a function one row at a time.

Sound Analysis and Synthesis

Functions for analysing, manipulating, displaying, editing and synthesizing time waves (particularly sound). This package processes time analysis (oscillograms and envelopes), spectral content, resonance quality factor, entropy, cross correlation and autocorrelation, zero-crossing, dominant frequency, analytic signal, frequency coherence, 2D and 3D spectrograms and many other analyses. See Sueur et al. (2008) and Sueur (2018) .

An Interface to the Nexus Class Library

An interface to the Nexus Class Library which allows parsing of NEXUS, Newick and other phylogenetic tree file formats. It provides elements of the file that can be used to build phylogenetic objects such as ape's 'phylo' or phylobase's 'phylo4(d)'. This functionality is demonstrated with 'read_newick_phylo()' and 'read_nexus_phylo()'.

C++ Classes to Embed R in C++ (and C) Applications

C++ classes to embed R in C++ (and 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. Numerous examples are provided in the nine 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'), 'eigen' (for 'RInside' use with 'RcppEigen'), and 'c_interface' for a basic C interface and 'Ruby' illustration. 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.

Virtual Machines for R

Manage, provision and use Virtual Machines pre-configured for R. Develop, test and build package in a clean environment. 'Vagrant' tool and a provider (such as 'Virtualbox') have to be installed.