AltFluxes (Alternative Fluxes) is an open source (under the GPL v3 license) the COBRA Toolbox extension for flux variability analysis (FVA) with graphical representation of alternative flux rates for constraints-based reconstruction and analysis (COBRA) models in the MATLAB environment.

The first version of AltFluxes was released on 03.02.2012.

The latest version of AltFluxes is available here

AltFluxes is developed with funding sources of a project of European Structural Fund Nr. 2009/0207/1DP/ "Latvian Interdisciplinary Interuniversity Scientific Group of Systems Biology"




The installation of the extension consists of unpacking the archived scripts (M files) to desired location and setting a path to these files in MATLAB.

AltFluxes User Manual

AltFluxes has one function - fluxes=altfluxes(model,rxns), where model stands for COBRA model and rxns stands for a list of reactions of interest. Model must contain all necessary data for FBA and FVA processing. The list of reactions of interest can be predefined variable in the MATLAB workspace or a string of reactions abbreviations in brackets {} seperated by commas, for example, {'R01','R02',...,'Rn'}.

Screenshots from AltFluxes

Graphical results

AltFluxes picture 1

Results in the MATLAB command window

AltFluxes picture 2