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Open Access Software

Meredys, a multi-compartment reaction-diffusion simulator using multistate realistic molecular complexes

Dominic P Tolle and Nicolas Le Novère*

Author Affiliations

Computational Neurobiology Group, EMBL-European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK

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BMC Systems Biology 2010, 4:24  doi:10.1186/1752-0509-4-24

Published: 16 March 2010

Additional files

Additional file 1:

Example model NeuroML input files. NeuroML input files describing the example model used in the text.

Format: PDF Size: 110KB Download file

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Open Data

Additional file 2:

Movie of Meredys running. Short movie of a simulation run using Meredys.

Format: TGZ Size: 57KB Download file

Open Data

Additional file 3:

Sourcecode of Meredys. Archive containing the source of the software, a java library, the software to generate a trace from simulation results, the manual, two full models, and a set of tutorials.

Format: MP4 Size: 1.1MB Download file

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Open Data

Additional file 4:

Comparison of Meredys and continuous approaches. Comparison of simulations of zero order, uni- and bimolecular reactions run in Meredys or obtained using ordinary differential equations.

Format: TGZ Size: 4.6MB Download file

Open Data