The function modelorg2ExPA writes the content of an instance of class
modelorg to text files in a format which can be read by the
program ExPA to compute extreme pathways.
modelorg2ExPA(model, fname = NULL, exIntReact = NULL,
filepath = ".", suffix = "expa",
tol = SYBIL_SETTINGS("TOLERANCE"))An object of class modelorg.
An single character string giving the filename to write to.
Default: <model_id>.expa.
A single character string giving the path to a certain directory in which
the output files will be stored.
Default: ".".
A single character string giving the file name extension.
Default: "expa".
A single numeric value giving the limit of tolerance. An element
\(S_{ij}\) of the stoichiometric matrix is treated as non-zero,
if \(|S_{ij}| > \textrm{tol}\) is true.
Default: "expa".
Returns TRUE invisibly on success.
The function modelorg2ExPA produces input files for the program ExPA.
With ExPA, it is possible to calculate extreme pathways in metabolic networks.
The function produces a warning, if a reaction contains non-integer stoichiometric values, because they are not compatible with the ExPA program.
Bell, S. L. and Palsson, B. <U+00D8>. (2005) Expa: a program for calculating extreme pathways in biochemical reaction networks. Bioinformatics 21, 1739--1740.
The ExPA homepage http://gcrg.ucsd.edu/Downloads/ExtremePathwayAnalysis.