BacArena: Modeling Framework for Cellular Communities in their Environments

Can be used for simulation of organisms living in communities (Bauer and Zimmermann (2017) <doi:10.1371/journal.pcbi.1005544>). Each organism is represented individually and genome scale metabolic models determine the uptake and release of compounds. Biological processes such as movement, diffusion, chemotaxis and kinetics are available along with data analysis techniques.

Version: 1.8.2
Depends: R (≥ 3.5.0), sybil (≥ 2.1.3), ReacTran (≥ 1.4.2), deSolve (≥ 1.12), Matrix (≥ 1.2)
Imports: methods, utils, stats, graphics, ggplot2, reshape2, glpkAPI, plyr, Rcpp, igraph, stringr, R.matlab
LinkingTo: Rcpp, RcppArmadillo, RcppEigen
Suggests: parallel, knitr, rmarkdown
Published: 2020-05-20
Author: Eugen Bauer [aut], Johannes Zimmermann [aut, cre]
Maintainer: Johannes Zimmermann <j.zimmermann at>
License: GPL-3 | file LICENSE
NeedsCompilation: yes
Materials: README NEWS
CRAN checks: BacArena results


Reference manual: BacArena.pdf
Vignettes: BacArena-Introduction


Package source: BacArena_1.8.2.tar.gz
Windows binaries: r-devel:, r-release:, r-oldrel:
macOS binaries: r-release (arm64): BacArena_1.8.2.tgz, r-release (x86_64): BacArena_1.8.2.tgz, r-oldrel: BacArena_1.8.2.tgz
Old sources: BacArena archive


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