Description Usage Arguments Details Value Author(s) References Examples
Performs robustness analysis for a given metabolic model.
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model 
An object of class 
ctrlreact 
An object of class 
rng 
A numeric vector of length two, giving the lower and upper bound of the
control reaction. If set to 
numP 
The number of points to analyse. 
verboseMode 
An integer value indicating the amount of output to stdout, see

... 
Further arguments passed to 
The function robAna
performs a robustness analysis with a given
model. The flux of ctrlreact
will be varied in numP
steps
between the maximum and minimum value the flux of ctrlreact
can reach.
For each of the numP
datapoints the followong lp problem is solved
max c^T v s.t. Sv = 0 v_j = c_k a_i <= v_i <= b_i for i = 1, ..., n, i != j
with S being the stoichiometric matrix, a_i
and b_i being the lower and upper bounds for flux (variable)
i. The total number of variables of the optimization problem is denoted
by n. The parameter c_k is varied numP
times in the range
of v_i,min to v_i,max.
The result of the optimization is returned as object of class
optsol_robAna
containing the objective
value for each datapoint.
The extreme points of the range for ctrlreact
are calculated via flux
balance analysis (see also
sysBiolAlg_fba
) with the objective
function being minimization and maximization of the flux through
ctrlreact
.
An object of class optsol_robAna
.
Gabriel GeliusDietrich <[email protected]>
Maintainer: Claus Jonathan Fritzemeier <[email protected]>
Becker, S. A., Feist, A. M., Mo, M. L., Hannum, G., Palsson, B. Ø. and Herrgard, M. J. (2007) Quantitative prediction of cellular metabolism with constraintbased models: the COBRA Toolbox. Nat Protoc 2, 727–738.
Schellenberger, J., Que, R., Fleming, R. M. T., Thiele, I., Orth, J. D., Feist, A. M., Zielinski, D. C., Bordbar, A., Lewis, N. E., Rahmanian, S., Kang, J., Hyduke, D. R. and Palsson, B. Ø. (2011) Quantitative prediction of cellular metabolism with constraintbased models: the COBRA Toolbox v2.0. Nat Protoc 6, 1290–1307.
Bernhard Ø. Palsson (2006). Systems Biology: Properties of Reconstructed Networks. Cambridge University Press.
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