Metabolic Networks Toolbox for Matlab

The Metabolic Networks Toolbox contains functions for constructing, simulating, and analysing computational models of metabolism.

Dependencies:

o Matlab Optimization Toolbox (for command quadprog used in some functions)

o Matlab utility functions (https://github.com/liebermeister/matlab-utils)

o SBML toolbox (http://sbml.org/Software/SBMLToolbox)

o SBtab toolbox (https://github.com/liebermeister/sbtab-matlab)

o Tensor toolbox (http://www.sandia.gov/~tgkolda/TensorToolbox/index-2.5.html)

o efmtool (http://www.csb.ethz.ch/tools/efmtool)

For reading and writing cobra files, the matlab cobra toolbox is also required. Please make sure that these matlab packages are installed in your system and that all these directories and subdirectories are included in your matlab path.

Some functions employ linear or quadratic optimisation. If CPLEX is installed in your system, version 12.10 is required. If CPLEX is not installed, native matlab functions for optimisation are used instead.

Installation

Please see the installation instructions.

HTML documentation is available in the subdirectory doc

License

This package is released under the GNU General Public License.

Contact

Please contact Wolfram Liebermeister with any questions or comments.