J. Morton, L. Pachter, A. Shiu, B. Sturmfels and O. Wienand, Geometry of rank tests, Proceedings of the Third European Workshop on Probabilistic Graphical Models (PGM 3), Prague, Czech Republic, September 2006.
M. Alexandersson, N. Bray and L. Pachter, Pair hidden Markov models, special review in Encyclopedia of Genetics, Genomics, Proteomics and Bioinformatics (L. B. Jorde, P. Little, M. Dunn and S. Subramanian, editors), October 2005.
L. Pachter, F. Lam, M. Alexandersson,Picking alignments from (Steiner) trees, Proceedings of the Sixth Annual International Conference on Research in Computational Molecular Biology (RECOMB 2002) (2002).
L. Pachter, S. Batzoglou, V. I. Spitkovsky, W. Beebee, E. S. Lander, B. Berger and D. J. Kleitman, A dictionary based approach for gene annotation, Proceedings
of the Third Annual International Conference on Research in Computational Molecular Biology (RECOMB 1999) (1999) p 285--294.
L. Pachter, H. Snevily and B. Voxman, On pebbling graphs, Proceedings of
the Twenty-sixth Southeastern International Conference on Combinatorics,
Graph Theory and Computing. Congressus Numerantium, 107 (1995) p 65--80.