The artificial intelligence workbench: a retrospective review

• LÓPEZ-FERNÁNDEZ, Hugo ^[1] ; REBOIRO-JATO, Miguel ^[1] ; PÉREZ RODRÍGUEZ, José A. ^[2] ; FDEZ-RIVEROLA, Florentino ^[1] ; GLEZ-PEÑA, Daniel ^[1]
  1. [1] Universidade de Vigo

     Universidade de Vigo

     Vigo, España

     
  2. [2] CFR: Centro de Formación e Recursos de Ourense
• Localización: ADCAIJ: Advances in Distributed Computing and Artificial Intelligence Journal, ISSN-e 2255-2863, Vol. 5, Nº. 1, 2016, págs. 73-85
• Idioma: inglés
• DOI: 10.14201/ADCAIJ2016517385
• Enlaces
  • Texto completo
• Resumen

  • Last decade, biomedical and bioinformatics researchers have been demanding advanced and user-friendly applications for real use in practice. In this context, the Artificial Intelligence Workbench, an open-source Java desktop application framework for scientific software development, emerged with the goal of provid-ing support to both fundamental and applied research in the domain of transla-tional biomedicine and bioinformatics. AIBench automatically provides function-alities that are common to scientific applications, such as user parameter defini-tion, logging facilities, multi-threading execution, experiment repeatability, work-flow management, and fast user interface development, among others. Moreover, AIBench promotes a reusable component based architecture, which also allows assembling new applications by the reuse of libraries from existing projects or third-party software. Ten years have passed since the first release of AIBench, so it is time to look back and check if it has fulfilled the purposes for which it was conceived to and how it evolved over time.

• Referencias bibliográficas
  • Alvarado-Pérez, J.C., Peluffo-Ordó-ez, D.H., and Theron, R., 2015, Bridging the Gap between Human Knowledge and Machine Learning. Advances...
  • Barbosa, P., Dias, O., Arrais, J.P., and Rocha, M., 2014, Metagenomic Analysis of the Saliva Microbiome with Merlin. Advances in Intelligent...
  • Dias, D., Rocha, M., Ferreira, E.C., and Rocha, I., 2015, Reconstructing genome-scale metabolic models with merlin. Nucleic Acids Research,...
  • Fdez-Riverola, F., Glez-Pe-a, D., López-Fernández, H., Reboiro-Jato, M., and Méndez J.R., 2012, A Java application framework for scientific...
  • Galesio, M., López-Fdez, H., Reboiro-Jato, M., Gómez-Meire, S., Glez-Pe-a, D., Fdez-Riverola, F., Lodei-ro, C., Diniz, D., and Capelo, J.L.,...
  • Glez-Pe-a, G., Reboiro-Jato, M., Maia, P., Díaz, F., and Fdez-Riverola, F., 2010, AIBench: a rapid appli-cation development framework for...
  • Glez-Pe-a, D., Gómez-López, G., Reboiro-Jato, M., Fdez-Riverola, F., and Pisano, D.G., 2011, PileLine: a toolbox to handle genome position...
  • Gonçalves, E., Rocha, I., and Rocha, M., 2012, Computational tools for strain optimization by tuning the optimal level of gene expression....
  • Hall, M., Frank, E., Geoffrey, H., Pfahringer, B., Reutemann, P., and Witten, I.H., 2009, The WEKA Data Mining Software: An Update. SIGKDD...
  • Khayati, N., and Lejouad-Chaarib, W., 2013. A Distributed and Collaborative Intelligent System for Medical Diagnosis. Advances in Distributed...
  • López-Fernández, H., Reboiro-Jato, M., Glez-Pe-a, D., Méndez-Reboredo, J.R., Santos, H.M., Carreira, R.J., Capelo, J.L., and Fdez-Riverola,...
  • López-Fernández, H., Glez-Pe-a, D., Reboiro-Jato, M., Gómez-López, G., Pisano, D.G., and Fdez-Riverola, F., 2011b, PileLineGUI: a desktop...
  • López-Fernández, H., Glez-Pe-a, D., Reboiro-Jato, M., Aparicio, F., Gachet, D., Buenaga, M., and Fdez-Riverola, F., 2013a, BioAnnote: A software...
  • López-Fernández, H., Reboiro-Jato, M., Madeira, S.C., López-Cortés, R., Nunes-Miranda, J.D., Santos, H.M., Fdez-Riverola, F., and Glez-Pe-a,...
  • López-Fernández, H., Reboiro-Jato, M., Glez-Pe-a, D., and Fdez-Riverola, F., 2014, A comprehensive analysis about the influence of low-level...
  • http://dx.doi.org/10.1504/IJDMB.2014.064897
  • López-Fernández, H., Santos, H.M., Capelo, J.L., Fdez-Riverola, F., Glez-Pe-a, D., and Reboiro-Jato, M., 2015, Mass-Up: an all-in-one open...
  • López-Fernández, H., 2016, Application of data mining and artificial intelligence techniques to mass spectrometry data for knowledge discovery....
  • Lourenço, A., Carreira, R., Carneiro, S., Maia, P., Glez-Pe-a, D., Fdez-Riverola, F., Ferreira, E.C., Rocha, I., and Rocha, M., 2009, @Note:...
  • Noronha, A., Vilaça, P., and Rocha, M., 2013, Network Visualization Tools to Enhance Metabolic Engi-neering Platforms. Advances in Intelligent...
  • Nunes-Miranda, J.D., Santos, H.M., Reboiro-Jato, M., Fdez-Riverola, F., Igrejas, G., Lodeiro C., and Capelo, J.L., 2012, Direct matrix assisted...
  • Pereira, A., Felisberto, F., Maduro, L., and Felgueiras, M., 2012. Fall Detection on Ambient Assisted Living using a Wireless Sensor Network....
  • Pérez-Rodríguez, G., Glez-Pe-a, D., Azevedo, N.F., Pereira, M.O., Fdez-Riverola, F., and Lourenço, A., 2015, Enabling systematic, harmonised...
  • Reboiro-Jato, D., Reboiro-Jato, M., Fdez-Riverola, F., Vieira, C.P., Fonseca, N.A., and Vieira, J., 2012, ADOPS - Automatic detection of positively...
  • Reboiro-Jato, M., Laza, R., López-Fernández, H., Glez-Pe-a, D., Díaz, F., and Fdez-Riverola, F., 2013, genEnsemble: a new model for the combination...
  • Reboiro-Jato, M., Díaz, F., Glez-Pe-a, D., and Fdez-Riverola, F., 2014, A novel ensemble of classifiers that use biological relevant gene...
  • Rocha, I., Maia, P., Evangelista, P., Vilaça, P., Soares, S., Pinto, J.P., Nielsen, J., Patil, K.R., Ferreira, E.C., and Rocha, M., 2010,...
  • Rocha, M., Mendes, R., Rocha, O., Rocha, I., and Ferreira, E.C., 2014, Optimization of fed-batch fer-mentation processes with bio-inspired...
  • Romero, R., Seara Vieira, A., Iglesias, E. L., Borrajo, L., 2014, BioClass: A Tool for Biomedical Text Classification. Advances in Intelligent...
  • Santos, A., Nogueira, R., and Lourenço, A., 2012. Applying a text mining framework to the extraction of numerical pa-rameters from scientific...
  • Santos, H.M., Reboiro-Jato, M., Glez-Pe-a, D., Diniz, M.S., Fdez-Riverola, F., Carvalho R., Lodeiro, C., and Capelo, J.L., 2010, Decision...
  • Seara Vieira, A., Iglesias, E.L., Borrajo, L., and Romero R., 2014. A HMM Text Classification Model with Learning Capacity. Advances in Distributed...
  • Spinellis, D., 2008, Software Builders. IEEE Software, 25(3):22-23. http://dx.doi.org/10.1109/MS.2008.74
  • Vilaça, P., Rocha, I., and Rocha, M., 2011, A computational tool for the simulation and optimization of microbial strains accounting integrated...