BioNetFit: a fitting tool compatible with BioNetGen, NFsim and distributed computing environments.
Bioinformatics
; 32(5): 798-800, 2016 03 01.
Article
en En
| MEDLINE
| ID: mdl-26556387
ABSTRACT
UNLABELLED Rule-based models are analyzed with specialized simulators, such as those provided by the BioNetGen and NFsim open-source software packages. Here, we present BioNetFit, a general-purpose fitting tool that is compatible with BioNetGen and NFsim. BioNetFit is designed to take advantage of distributed computing resources. This feature facilitates fitting (i.e. optimization of parameter values for consistency with data) when simulations are computationally expensive. AVAILABILITY AND IMPLEMENTATION BioNetFit can be used on stand-alone Mac, Windows/Cygwin, and Linux platforms and on Linux-based clusters running SLURM, Torque/PBS, or SGE. The BioNetFit source code (Perl) is freely available (http//bionetfit.nau.edu). SUPPLEMENTARY INFORMATION Supplementary data are available at Bioinformatics online. CONTACT bionetgen.help@gmail.com.
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Colección:
01-internacional
Base de datos:
MEDLINE
Asunto principal:
Programas Informáticos
Idioma:
En
Revista:
Bioinformatics
Asunto de la revista:
INFORMATICA MEDICA
Año:
2016
Tipo del documento:
Article
País de afiliación:
Estados Unidos