Software from BioProcess Engineering group, IIM-CSIC

saCeSSa parallel global optimization library

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SYNBADma toolbox for automatic optimal design in synthetic biology

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AMIGO2Advanced Modelling and Identification using Global Optimization, version 2

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PREMERfast network inference with information theory

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BioPreDyn-bencha suite of benchmark problems for dynamic modelling in systems biology

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MIDERa toolbox for network inference using Mutual Information Distance and Entropy Reduction 

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MEIGOa multiplatform toolbox for Global Optimization using Metaheuristics

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AMIGOMatlab toolbox for Advanced Modelling and Identification using Global Optimization

crnreals

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SSm GO toolboxScatter Search for Global Optimization in Matlab


ssmgo

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DOTcvpSBMatlab toolbox for Dynamic Optimization in Systems Biology


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NEWS

Latest software

September 2016
AMIGO2, SYNBADm and saCeSS are now available


17 April 2013
MIDER toolbox is now available
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February 2013
MEIGO toolbox is available
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csic

BioProcess Engineering Group
IIM-CSIC
C/Eduardo Cabello 6
36208 Vigo (SPAIN)

Questions?

E-mail: gingproc@iim.csic.es



CRNrealsdistinguishability analysis of Biochemical Reaction Networks

crnreals

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GenSSItoolbox for structural identifiability analysis of biological models

genssi
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SensSBtoolbox for the development and Sensitivity Analysis of Systems Biology models

senssb

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GLOBALma clustering method for constrained global optimization problems in Matlab

Software available upon request (email us if interested)

The method is described in:

Csendes, T., L. Pal, J.O.H. Sendin, J.R. Banga (2008) The GLOBAL Optimization Method Revisited. Optimization Letters, 2(4):445-454.


 

MITSa Tabu search-based algorithm for mixed-integer nonlinear problems (MINLPs)

Software available upon request (email us if interested)

The method is described in:

Exler, O., L.T. Antelo, J.A. Egea, A.A. Alonso and J.R. Banga (2008) A Tabu search-based algorithm for mixed-integer nonlinear problems and its application to integrated process and control system design. Computers & Chemical Engineering, 32(8):1877-1891.


 

ACOmiAnt Colony Optimization for mixed integer nonlinear programming problems (MINLPs)

Software available upon request (email us if interested)

The method is described in:

Schlüter, M., J. A. Egea, J. R. Banga (2009) Extended ant colony optimization for non-convex mixed integer nonlinear programming. Computers & Operations Research 36(7):2217-2229.

E-mail: gingproc@iim.csic.es


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