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Rgeogram

An R wrapper to the Geogram library

The Geogram and Graphite libraries are maintained by Bruno Levy:

http://alice.loria.fr/software/geogram/doc/html/index.html

Installation

The quickest way to install Rgeogram is via the devtools package:

install.packages("devtools")
devtools:::install_github("TraME-Project/Rgeogram")

Note that Rgeogram requires compilation, so an appropriate development environment is necessary to install the package.

  • Windows users should get Rtools. Please ensure that R and Rtools are installed to C:\ (and not C:\Program Files), and that the PATH variables are set correctly (described during the Rtools installation process).
  • Mac users should install Xcode and then check here for additional tools (Clang6 and gfortran).

Example

Solving a 2D problem and recovering the systematic utilities:

library(Rgeogram)

chi1 <- c(0.2, 0.7, .4, .5)
chi2 <- c(0.1, 0.3, .9, .4)

chi_kj <- cbind(chi1,chi2)/2

res <- otm2D(chi_kj)
otm2D(chi_kj,cbind(rep(0.25,4)))

vtilde <- res$weights

v <- - vtilde + (chi_kj[,1]^2 + chi_kj[,2]^2)
delta_j <- v[4] - v[1:3]

License

  • The Rgeogram wrapper code is licensed under the GPL version 2.0.

  • Geogram is licensed under 3-Clause BSD License:

http://alice.loria.fr/software/geogram/doc/html/geogram_license.html

  • Graphite is licensed under the GPL:

http://alice.loria.fr/software/graphite/doc/html/graphite_license.html