geometricFBA¶
- geometricFBA(model, varargin)¶
Finds a unique optimal FBA solution that is (in some sense) central to the range of possible fluxes; as described in K Smallbone, E Simeonidis (2009). Flux balance analysis: A geometric perspective. J Theor Biol 258: 311-315 http://dx.doi.org/10.1016/j.jtbi.2009.01.027
USAGE:
flux = geometricFBA(model, varargin)
- INPUT:
model: COBRA model structure
- OPTIONAL INPUTS:
- printLevel: [default: 1] printing level,
= 0 - silent = 1 - show algorithm progress and times
- epsilon: [default: 1e-6] convergence tolerance of algorithm,
defined in more detail in paper above
- flexRel: [default: 0] flexibility to flux bounds
try e.g. 1e-3 if the algorithm has convergence problems
- OUTPUT:
flux: unique centered flux
Optional parameters can be entered as parameter name followed by parameter value: i.e. …,’epsilon’, 1e-9)