Software
FERN – a Java framework for stochastic simulation and evaluation of reaction networks
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* Corresponding author: Caroline C Friedel Caroline.Friedel@bio.ifi.lmu.de
LFE Bioinformatik, Institut für Informatik, Ludwig-Maximilians-Universität München, Amalienstraße 17, 80333 München, Germany
BMC Bioinformatics 2008, 9:356 doi:10.1186/1471-2105-9-356
Published: 29 August 2008Additional files
Additional file 1:
FERN distribution, Version 1.3. This archive contains the FERN source code and binaries as well as documentation and example models in FernML and SBML.
Format: ZIP Size: 3.9MB Download file or display content in a new window
Additional file 2:
FERN user guide. The user guide provides instructions on installing and using FERN, as well as a description of the software architecture and a specification of FernML and supported features of SBML.
Format: PDF Size: 513KB Download file
This file can be viewed with: Adobe Acrobat Reader
Additional file 3:
Supplementary Figures. This file contains Supplementary Figures on FernML, the simulation cycle, the Cytoscape plugin and runtime comparisons between FERN and gillespie2.
Format: PDF Size: 209KB Download file
This file can be viewed with: Adobe Acrobat Reader