Refereed journals

• M. Allili, T. Kaczynski, C. Landi, and Filippo Masoni, A new matching algorithm for multidimensional persistence (preprint ArXiv:1511.05427v2 [cs.CG], Feb 2016), submitted in August 2016.
• R. Dedic and M. Allili. A Topology based Approach for Cardiac PET Image Segmentation, preliminary report (2016).
• M. Allili, T. Kaczynski, and C. Landi, Reducing complexes in multidimensional persistent homology theory, Journal of Symbolic Computation 78 (2017), 61–75.
• M. Allili and D. Corriveau, A Global Reduction Based Algorithm for Computing Homology of Chain Complexes. Advances in Pure Mathematics 6 (2016), 113-137. doi: 10.4236/apm.2016.63010.
• M. Allili et al. Detecting Critical Regions in Multidimensional Data Sets. Journal of Computers and Mathematics with Applications 61 (2011), 499-512.
• M. Allili, D. Corriveau, S. Derivière, T. Kaczynski and A. Trahan. Discrete dynamical system framework for the topological study of lattice height data. Journal of Math. Imaging and Vision 28 (2) (2007), pp. 99-111.
• M. Allili, D. Corriveau. Topological Analysis of Shapes Using Morse Theory. Computer Vision and Image Understanding 105 (2007), pp. 188-199.
• R. Dedic, M. Allili, R. Lecomte, A. Benchakroun. Segmentation of Cardiac Images by the Force Field Driven Speed Term. International Journal of Biological and Life Sciences, Volume 3 (4) (2007), pp. 271-275.
• D. Ziou, M. Allili. Generating Cubical Complexes from Image Data and Computation of the Euler Number. Journal of Pattern Recognition, 35-12 (2002), pp. 2833-2839.
• M. Allili, T. Kaczynski. Geometric construction of a coboundary of a cycle. Journal of Discrete and Computational Geometry 25 (2001), pp. 125-140.
• M. Allili, T. Kaczynski. An Algorithmic approach to the construction of homomorphisms induced by maps in homology. Journal of Transactions of the American Mathematical Society 352 (2000) , pp. 2261-2281.
• M. Allili, T. Kaczynski. Stability of Index Pairs for Multivalued Flows. Nonlinear Analysis, Vol. 30:7 (1997), pp. 4113-4122.
• M. Allili, T. Kaczynski. Stability of Index Pairs for Flows. Proceedings of the Conference “Topological Methods in Differential Equations and Dynamical Systems” (Krakow, Przegorzaly, 1996), Univ. Iagel. Acta Math. No. 36 (1998), pp. 173-175.

Refereed conference papers

• M. Allili, L. Bentabet, Y. Chen. A Novel Topology Based Watershed Segmentation. Proc.18th International Conference on Information Science, Signal Processing and Applications (ISSPA) (IEEE) (2012), pp. 847-852.
• R. Dedic, M. Allili. A Novel Cooperative Approach for Cardiac PET Image Segmentation. Proc. 18th International Conference on Information Science, Signal Processing and Applications (ISSPA) (IEEE) (2012), pp. 34-39.
• R. Dedic, M. Allili, R. Lecomte. Unsupervised Cardiac PET Image Segmentation. Proc. 18th International Conference on Systems, Signals and Image Processing (IWSSIP) (IEEE) (2011), pp. 273-278.
• M. Allili, D. Corriveau, A. Villares. Exploring Height Fields: Interactive Visualization and Applications. Proc. Visualization and Data Analysis (2011), Vol. 7868, 78680B-1.
• M. Allili, D. Li, M.S. Allili. Digital Topology-based Method for the Topological Filtering of a Reconstructed Surface. Proc. Visualization and Data Analysis (2011), Vol. 7868, 78680U-1.
• M. Allili., M. Ethier, T. Kaczynski. Critical region analysis of scalar elds in arbitrary dimensions. Proc. SPIE-IS&T Electronic Imaging , Visualization and Data Analysis, Vol. 7530 (2010), 7530-7.
• D. Corriveau, M. Allili. Computing Homology: A Global Reduction Approach. S. Brlek, C. Reutenauer, and X. Provenal (Eds.): DGCI 2009, LNCS 5810 Springer (2009), pp. 313-324.
• R. Dedic, M. Allili, R. Lecomte, A. Benchakroun. Cardiac PET Image Segmentation by a Deformable Model with Force Field Driven Speed Term. Proc. Nuclear Science Symposium Conference Record NSS'08 (IEEE) (2008), pp. 4399-4402.
• R. Dedic, M. Allili. Intelligent topology preserving geometric deformable model. Proceedings of the 2nd International Conference on Computer Vision Theory and Applications VISAPP(1) (2007), pp 322-327.
• R. Dedic, M. Allili. Complete boundary detection of textured objects via deformable models. Proc. SPIE-IS&T Electronic Imaging , Vision Geometry XV, Vol. 6499 (2007), 64990H.
• S. Derdar, M. Allili, Djemel Ziou. Topological feature extraction using algebraic topology. Proc. SPIE-IS&T Electronic Imaging, Vision Geometry XV, Vol. 6499 (2007), 64990G.
• R. Dedic, M. Allili. A Deformable Model for Complete Boundary Detection. Proceedings of IEEE International Symposium on Industrial Electronics ISIE 2006, pp. 685-690.
• M. Allili, D. Corriveau. Descripteur topologique pour les formes basé sur la théorie de Morse. Proceedings of Congrès Reconnaissance des Formes et Intelligence Artificielle, RFIA 2006. Tours, France, January 2006.
• S. Derdar, M. Allili, D. Ziou. Image matching using algebraic topology. Proc. SPIE-IS&T Electronic Imaging , Vision Geometry XIV, Vol. 6066 (2006), 6066-21.
• M. Allili, B. Yang, L. Bentabet. A deformable model with topology analysis and adaptive clustering for boundary detection. Proc. SPIE-IS&T Electronic Imaging , Vision Geometry XIV, Vol. 6066 (2006), 6066-01.
• D. Corriveau, M. Allili, D. Ziou. Morse Connections Graph for Shape Representation. Proceedings Advanced Concepts for Intelligent Vision Systems ACIVS 2005, Lecture Notes in Computer Science 3708 Springer 2005, pp. 219-226.
• B. Yang, M. Allili. Geometric Deformable Models with Topology Analysis for Shape Modeling. Proceedings of Fifth IASTED International Conference VIIP 2005 (track: 480-253), pp. 660-665.
• M. Allili, D. Corriveau, D. Ziou. Efficient Topological Descriptor for Shape Representation. Proceedings of SPIE, Image Processing: Algorithms and Systems IV, vol. 5672, 2005, pp. 287-296.
• M. Allili, D. Corriveau, D. Ziou. Morse Homology Descriptors for Shape Characterization. International Conference on Pattern Recognition (ICPR 2004), vol. 4, 2004, pp 27-30.
• M.-F. Auclair-Fortier, D. Ziou, M. Allili. Global computational algebraic topology approach for diffusion. Proc. SPIE Int. Soc. Opt. Eng., vol. 5299, 357, 2004, pp. 357-368.
• D. Ziou, M. Allili. Image Modeling: new perspective for image processing and computer vision. Proc. SPIE Int. Soc. Opt. Eng., vol. 5299, 123, 2004, pp. 123-133.
• M. Allili, D. Ziou. Computational Homology Approach for Topology Descriptors and Shape Representation. Proceedings of International Conference on Image and Signal Processing (ICISP’2003), vol. 2, 2003, pp. 508-516.
• M.-F. Auclair-Fortier, D. Ziou, M. Allili. A Global CAT Approach for Graylevel Diffusion. 7th IEEE International Symposium on Signal Processing and its Applications (ISSPA 2003), vol. 1, 2003, pp. 453-456.
• M.-F. Auclair-Fortier, P. Poulin, D. Ziou, M. Allili. A Computational Algebraic Topology Approach for Diffusion Process. Proceedings of 3rd Workshop on Physics in Signal and Image Processing (PSIP 2003), 2003, pp. 77-80.
• M.-F. Auclair-Fortier, P. Poulin, D. Ziou, M. Allili. A Computational Algebraic Topology Model for the Deformation of Curves . Proceedings of 2nd International Workshop on Articulated Motion and Deformable Objects (AMDO 2002), vol. 2492, 2002, pp. 56-67.
• P. Poulin, M.-F. Auclair-Fortier, D. Ziou, M. Allili. A Physics Based Model for the Deformation of Curves: A CAT Approach. Joint International Symposium on GeoSpatial Theory, Processing and Applications Symposium of the ISPRS Commission IV, WG5, 2002.
• M.-F. Auclair-Fortier, P. Poulin, D. Ziou, M. Allili. A Computational Algebraic Topology Approach for Optical Flow . International Conference on Pattern Recognition (ICPR 2002), vol. 1, 2002, pp. 347-355.
• M. Allili, D. Ziou. Topological Feature Extraction in Binary Images. 6th IEEE International Symposium on Signal Processing and its Applications (ISSPA 2001), vol. 2, 2001, pp. 651-654.
• M. Allili, K. Mischaikow, A. Tannenbaum. Cubical Homology and the Topological Classification of 2D and 3D Imagery. IEEE International Conference on Image Processing (ICIP 2001), v 2, 2001, pp. 173-176.

Non-Refereed publications

• M. Allili, S. Day, O. Junge, and K. Mischaikow. A Rigorous Numerical Method for the Global Analysis of Infinite Dimensional Discrete Dynamical Systems. Preliminary Report, 2001.
• M. Allili. Une approche algorithmique pour le calcul de l’homologie de fonctions continues. Ph.D. Thesis, Université de Sherbrooke, 1999.