FASIMU: flexible software for flux-balance computation series in large metabolic networks.

ABSTRACT:

Background

Flux-balance analysis based on linear optimization is widely used to compute metabolic fluxes in large metabolic networks and gains increasingly importance in network curation and structural analysis. Thus, a computational tool flexible enough to realize a wide variety of FBA algorithms and able to handle batch series of flux-balance optimizations is of great benefit.

Results

We present FASIMU, a command line oriented software for the computation of flux distributions using a variety of the most common FBA algorithms, including the first available implementation of (i) weighted flux minimization, (ii) fitness maximization for partially inhibited enzymes, and (iii) of the concentration-based thermodynamic feasibility constraint. It allows batch computation with var

SUBMITTER: Hoppe A 

PROVIDER: S-EPMC3038154 | biostudies-literature | 2011 Jan

REPOSITORIES: biostudies-literature