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BioAmbient Machine

Welcome to BAM, the BioAmbient Machine.

BAM is a simulator of stochastic BioAmbients (see also the original paper on BioAmbients). BAM is written in Java 1.5.

BAM can be used to simulate bioregulatory pathways as well as membrane interaction.

BAM was implemented by Vinod A. Muganthan at Imperial College under the supervision of Dr. Maria Vigliotti.

BAM project was supported by the EPSRC project SPARTACOS.

Installation

  1. Ensure you have Java 1.5 (a.k.a Java 5) installed on your machine
  2. Download BAM 0.0.5 (JAR archive, 2.5 megabytes)
  3. Run BAM (double-clicking will most likely work, otherwise run java -jar bam-0.0.5.jar from the command line)

Documentation

Papers

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