iDynoR: R Analysis package for iDynoMiCS Simulation Results

iDynoMiCS is a computer program, developed by an international team of researchers, whose purpose is to model and simulate microbial communities in an individual-based way. It is described in detail in the paper "iDynoMiCS: next-generation individual-based modelling of biofilms" by Lardon et al, published in Environmental Microbiology in 2011. The simulation produces results in XML file format, describing the state of each species in each timestep (agent_State), a summary of the species statistics for a timepoint (agent_Sum), the state of each solute grid in each timestep (env_State) and a summary of the solutes for a timestep (env_Sum). This R package provides a means of reading this XML data into R such that the simulation response can be statistically analysed. iDynoMiCS is available from the website, where a full tutorial on using both the simulation and this R package is provided.

Version: 1.0
Depends: XML, vegan
Published: 2014-01-14
Author: Kieran Alden, Jan-Ulrich Kreft
Maintainer: Kieran Alden <kieran.alden at>
License: CeCILL
NeedsCompilation: no
CRAN checks: iDynoR results


Reference manual: iDynoR.pdf
Package source: iDynoR_1.0.tar.gz
Windows binaries: r-devel:, r-release:, r-oldrel:
OS X Snow Leopard binaries: r-release: iDynoR_1.0.tgz, r-oldrel: iDynoR_1.0.tgz
OS X Mavericks binaries: r-release: iDynoR_1.0.tgz