Team:BCCS-Bristol/Modeling-Software

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BSim

Pre-Compiled Versions

[http://2008sw.igem.org/bccs_bristol/bin/BSim.jar BSim.jar] (Compiled on Mac OS X 10.5.5 (Intel) using Java 1.5.0_16)

Source Code

[http://2008sw.igem.org/bccs_bristol/src/BSim_Source.zip BSim Source Code] (zip file)

User Guide

BSim User Guide

Acknowledgements

Werner Randelshofer ([http://www.randelshofer.ch http://www.randelshofer.ch]) - QuickTimeExportStream class
David J. Eisenberg (david@catcode.com) - PNGEncoder.java class

GRN Matlab Scripts

Sender

[http://2008sw.igem.org/bccs_bristol/src/GRN/sender.m Sender GRN] - Models the concentrations of mRNA and proteins for the sender part of the GRN.

[http://2008sw.igem.org/bccs_bristol/src/GRN/varyCpxR.m Vary CpxR concentration] - Shows levels of AHL outputted by sender when C_pMax is varied.

Transport

[http://2008sw.igem.org/bccs_bristol/src/GRN/transport.m Transport] - Analyses how the concentration of a given chemical varies over time due to a diffusion process.

Reciever

[http://2008sw.igem.org/bccs_bristol/src/GRN/reciever.m Reciever GRN] - Models the concentrations of mRNA and proteins for the reciever part of the GRN.

[http://2008sw.igem.org/bccs_bristol/src/GRN/compareRecieverInput.m Vary AHL concentration] - Shows levels of mCherry outputted by reciever when levels of AHL are varied.