MEIGOR specifications

Information


Unique identifier OMICS_15860
Name MEIGOR
Alternative name MEtaheuristics for bIoinformatics Global Optimization
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages MATLAB, R
License GNU General Public License version 3.0
Computer skills Advanced
Version 1.14.0
Stability Stable
Requirements
Rsolnp, snowfall, deSolve, CNORode, CellNOptR
Maintained Yes

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Versioning


No version available

Documentation


Maintainer


  • person_outline Jose Egea

MEIGOR citations

 (2)
library_books

Data driven reverse engineering of signaling pathways using ensembles of dynamic models

2017
PLoS Comput Biol
PMCID: 5319798
PMID: 28166222
DOI: 10.1371/journal.pcbi.1005379

[…] optimization problem associated to model training is solved as a master (outer) nonlinear programming problem (NLP) with an inner initial value problem (IVP). The NLPs are solved using the R package MEIGOR [], with the evaluation of the objective function performed in C code. The solutions of IVPs are obtained by using the CVODE solver [].The experimental data is provided using the MIDAS file for […]

library_books

Phosphoproteomic analyses reveal novel cross modulation mechanisms between two signaling pathways in yeast

2014
Mol Syst Biol
PMCID: 4300490
PMID: 25492886
DOI: 10.15252/msb.20145112

[…] data using the logic ODE formalism of CellNOpt embedded in the CNORode R package available in bioconductor. As a global optimization procedure, a scatter search algorithm was used, included in the R meigor package (Egea et al, ). Each optimization problem was run for 48 h 50 times. Most cases converged on a very similar fit (Supplementary Fig S8).For model selection, the AIC (Burnham & Anderson, […]

MEIGOR funding source(s)
This work was supported by the EU through projects “BioPreDyn” (FP7-KBBE grant 289434) and “NICHE” (FP7-ITN grant 289384), from Ministerio de Economía y Competitividad (and the FEDER) through the projects “Multi-Scales” (DPI2011-28112-C04-03 and DPI2011-28112-C04-04), and from the CSIC intramural project “BioREDES” (PIE-201170E018).

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