Bayesian Network tools in Java (BNJ)

This section provides a partial listing of publications on specific concepts that influenced the development of BNJ and on representations and algorithms that it implements. It is still is under development. Please send any suggested additions to the BNJ developers.

References

Applications

[GHVW98] Grois, E., Hsu, W. H., Voloshin, M., & Wilkins, D. C. (1998). Bayesian Network Models for Automatic Generation of Crisis Management Training Scenarios. In Proceedings of the Tenth Innovative Applications of Artificial Intelligence Conference (IAAI-98), Madison, WI, pp. 1113-1120. Menlo Park, CA: AAAI Press. (PDF / PostScript / .ps.gz)

General

[Br95] Brooks, F. P. (1995). The Mythical-Man Month, 20th Anniversary Edition: Essays on Software Engineering. Boston, MA: Addison-Wesley.

[La00] Langley, P. (2000). Crafting papers on machine learning. In Proceedings of the Seventeenth International Conference on Machine Learning, Stanford, CA, pp. 1207-1211. San Francisco, CA: Morgan Kaufmann Publishers. (HTML / .ps.gz)

[La02] Langley, P. (2002). Issues in Research Methodology. Palo Alto, CA: Institute for the Study of Learning and Expertise. Available from URL: http://www.isle.org/~langley/methodology.html.

Recent and Current Research

[FGKP99] Friedman, N., Getoor, L., Koller, D., & Pfeffer, A. (1999). Learning Probabilistic Relational Models. In Proceedings of the International Joint Conference on Artificial Intelligence (IJCAI-1999), Stockholm, SWEDEN. San Francisco, CA: Morgan Kaufmann Publishers. (PDF)

[GFTK02] Getoor, L., Friedman, N., Koller, D., & Taskar, B. (2002). Learning Probabilistic Models of Link Structure. Journal of Machine Learning Research, 3(2002):679-707. (PDF)

[GH02] Guo, H. & Hsu, W. H. (2002). A Survey of Algorithms for Real-Time Bayesian Network Inference. In Guo, H., Horvitz, E., Hsu, W. H., and Santos, E., eds. Working Notes of the Joint Workshop (WS-18) on Real-Time Decision Support and Diagnosis, AAAI/UAI/KDD-2002. Edmonton, Alberta, CANADA, 29 July 2002. Menlo Park, CA: AAAI Press. (PDF)

[Gu02] Guo, H. (2002). A Bayesian Metareasoner for Algorithm Selection for Real-time Bayesian Network Inference Problems (Doctoral Consortium Abstract). In Proceedings of the Eighteenth National Conference on Artificial Intelligence (AAAI-2002), Edmonton, Alberta, CANADA, p. 983. Menlo Park, CA: AAAI Press. (PDF)

[HGPS02] Hsu, W. H., Guo, H., Perry, B. B., & Stilson, J. A. (2002). A permutation genetic algorithm for variable ordering in learning Bayesian networks from data. In Proceedings of the Genetic and Evolutionary Computation Conference (GECCO-2002), New York, NY. San Francisco, CA: Morgan Kaufmann Publishers. (PDF / PostScript / .ps.gz) - Nominated for Best of GECCO-2002, Genetic Algorithms Deme (31 nominees, 160 accepted papers out of 320)

Software

[SGS04] Spirtes, P. & Glymour, C. & Scheines, R. (2004). The TETRAD Project: Causal Models and Statistical Data. Pittsburgh, PA: Carnegie Mellon University Department of Philosophy. Available from URL: http://www.phil.cmu.edu/projects/tetrad/.

[LBB+04] Lauritzen, S. L. & Badsberg, J. H. & Bøttcher, S. G. & Dalgaard, P. & Dethlefsen, C. & Edwards, D. & Eriksen, P. S. & Gregersen, A. R. & Højsgaard, S. & Kreiner, S. (2004). gR - Graphical models in R. Aalborg, DENMARK: Aalborg University Department of Mathematical Sciences. Available from URL: http://www.math.auc.dk/gr/.

[Mu04] Murphy, K. P. (2004). Bayes Net Toolbox v5 for MATLAB. Cambridge, MA: MIT Computer Science and Artificial Intelligence Laboratory. Available from URL: http://www.ai.mit.edu/~murphyk/Software/BNT/bnt.html.

[PS02] Perry, B. P. & Stilson, J. A. (2002). BN-Tools: A Software Toolkit for Experimentation in BBNs (Student Abstract). In Proceedings of the Eighteenth National Conference on Artificial Intelligence (AAAI-2002), Edmondon, Alberta, CANADA, pp. 963-964. Menlo Park, CA: AAAI Press. (PS)

Textbooks and Tutorials

[Mu01] Murphy, K. P. (2001). A Brief Introduction to Graphical Models and Bayesian Networks. Berkeley, CA: Department of Computer Science, University of California - Berkeley. Available from URL: http://www.cs.berkeley.edu/~murphyk/Bayes/bayes.html.

[Ne90] Neapolitan, R. E. (1990). Probabilistic Reasoning in Expert Systems: Theory and Applications. New York, NY: Wiley-Interscience. (Out of print; Amazon.com reference)

[Ne03] Neapolitan, R. E. (2003). Learning Bayesian Networks. Englewood Cliffs, NJ: Prentice Hall. (Amazon.com reference)

Foundational Material and Seminal Research

[CH92] Cooper, G. F. & Herskovits, E. (1992). A Bayesian method for the induction of probabilistic networks from data. Machine Learning, 9(4):309-347.

[Jo98] Jordan, M. I., ed. (1998). Learning in Graphical Models. Cambridge, MA: MIT Press. (Amazon.com reference)

[LS88] Lauritzen, S., & Spiegelhalter, D. J. (1988). Local Computations with Probabilities on Graphical Structures and Their Application to Expert Systems. Journal of the Royal Statistical Society Series B 50:157-224.

[SGS01] Spirtes, P. & Glymour, C. & Scheines, R. (2001). Causation, Prediction, and Search, Second Edition. Cambridge, MA: MIT Press. (Amazon.com reference)

Theses and Dissertations Related to BNJ

[Me99] Mengshoel, O. J. (1999). Efficient Bayesian Network Inference: Genetic Algorthms, Stochastic Local Search and Abstraction. Ph.D. Dissertation, Department of Computer Science, University of Illinois at Urbana-Champaign, May, 1999. Available from URL: http://www-kbs.ai.uiuc.edu/web/kbs/publicLibrary/KBSPubs/Thesis/.

Workshops Relevant to BNJ

[GHHS02] Guo, H., Horvitz, E., Hsu, W. H., and Santos, E., eds. (2002). Working Notes of the Joint Workshop (WS-18) on Real-Time Decision Support and Diagnosis, AAAI/UAI/KDD-2002. Edmonton, Alberta, CANADA, 29 July 2002. Menlo Park, CA: AAAI Press. Available from URL: http://www.kddresearch.org/Workshops/RTDSDS-2002.

[HJP03] Hsu, W. H., Joehanes, R., & Page, C. D. (2003). Working Notes of the Workshop on Learning Graphical Models in Computational Genomics, International Joint Conference on Artificial Intelligence (IJCAI-2003). Acapulco, MEXICO, 09 Aug 2003. Available from URL: http://www.kddresearch.org/Workshops/IJCAI-2003-Bioinformatics.

 

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Page created: Fri 20 Dec 2002
Last updated: Sun 06 Jun 2004
William H. Hsu
BNJ Development Team