Is there any R package that implements the same capability of MatLab toolbox called SimBiology ? We are expecially interested in protein-protein interactions and network analysis. As far as I know SimBiology implements a system of ODEs reflecting the kinetic chemical reactions. We would be more interested in stochastic simulations. Thank you in advance. Maura tutti i telefonini TIM! [[alternative HTML version deleted]]
Hello, Please look here: http://crantastic.org/search?q=biology <http://crantastic.org/search?q=biology>Regards, Carlos. On Fri, Oct 30, 2009 at 6:12 PM, <mauede@alice.it> wrote:> Is there any R package that implements the same capability of MatLab > toolbox called SimBiology ? > We are expecially interested in protein-protein interactions and network > analysis. > As far as I know SimBiology implements a system of ODEs reflecting the > kinetic chemical reactions. > We would be more interested in stochastic simulations. > Thank you in advance. > > Maura > > > tutti i telefonini TIM! > > > [[alternative HTML version deleted]] > > ______________________________________________ > R-help@r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/r-help > PLEASE do read the posting guide > http://www.R-project.org/posting-guide.html > and provide commented, minimal, self-contained, reproducible code. >[[alternative HTML version deleted]]
The differential equations solvers (LSODA, etc.) used in Matlab are all available in R. You may need to set-up the equations yourself, from a format such as SBML. The capability is all there in R - maybe just not as nicely packaged and pre-digested as Matlab. If you access to programming resources, choose R. Regards, - Sanjay mauede at alice.it wrote:> Is there any R package that implements the same capability of MatLab toolbox called SimBiology ? > We are expecially interested in protein-protein interactions and network analysis. > As far as I know SimBiology implements a system of ODEs reflecting the kinetic chemical reactions. > We would be more interested in stochastic simulations. > Thank you in advance. > > Maura > > > tutti i telefonini TIM! > > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor >