The hardware and bandwidth for this mirror is donated by METANET, the Webhosting and Full Service-Cloud Provider.
If you wish to report a bug, or if you are interested in having us mirror your free-software or open-source project, please feel free to contact us at mirror[@]metanet.ch.
bioPN is a package suited to perform simulation of deterministic and stochastic systems of biochemical reaction networks. Models are defined using a subset of Petri Nets, in a way that is close at how chemical reactions are defined. For deterministic solutions, bioPN creates the associated system of differential equations "on the fly", and solves it with a Runge Kutta Dormand Prince 45 explicit algorithm. For stochastic solutions, bioPN offers variants of Gillespie algorithm, or SSA. For hybrid deterministic/stochastic, it employs the Haseltine and Rawlings algorithm, that partitions the system in fast and slow reactions. bioPN algorithms are developed in C to achieve adequate performance.
Version: | 1.2.0 |
Published: | 2014-03-04 |
DOI: | 10.32614/CRAN.package.bioPN |
Author: | Roberto Bertolusso and Marek Kimmel |
Maintainer: | Roberto Bertolusso <rbertolusso at rice.edu> |
License: | GPL-2 | GPL-3 [expanded from: GPL (≥ 2)] |
Copyright: | see file COPYRIGHTS |
NeedsCompilation: | yes |
CRAN checks: | bioPN results |
Reference manual: | bioPN.pdf |
Package source: | bioPN_1.2.0.tar.gz |
Windows binaries: | r-devel: bioPN_1.2.0.zip, r-release: bioPN_1.2.0.zip, r-oldrel: bioPN_1.2.0.zip |
macOS binaries: | r-release (arm64): bioPN_1.2.0.tgz, r-oldrel (arm64): bioPN_1.2.0.tgz, r-release (x86_64): bioPN_1.2.0.tgz, r-oldrel (x86_64): bioPN_1.2.0.tgz |
Please use the canonical form https://CRAN.R-project.org/package=bioPN to link to this page.
These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.