1. Ghassan Hamarneh and Rafeef Abugharbieh, editors. Proceedings of the First MICCAI Workshop on Analysis of Functional Medical Images, Workshop held in conjunction with the 2008 International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI). New York, NY, USA, Sep 10 2008. Keyword(s): Molecular Imaging, Functional MRI, Spatio-Temporal. [bibtex-key = miccai_func2008_proc]



2. Ghassan Hamarneh and Rafeef Abugharbieh, editors. Proceedings of the Mathematical Methods for Medical Image Analysis (MMMIA), Banff International Research Station (BIRS) 5-day workshop. Banff, AB, Canada, Nov. 2007. [bibtex-key = mmmia2007]

1. Bernard Ng, Ghassan Hamarneh, and Rafeef Abugharbieh. Modeling Brain Activation in fMRI Using Group MRF. IEEE Transactions on Medical Imaging (IEEE TMI), 31(5):1113-1123, 2012. Keyword(s): Functional MRI, Segmentation, Graph based. [bibtex-key = tmi2012b]



2. Miranda Poon, Ghassan Hamarneh, and Rafeef Abugharbieh. Efficient Interactive 3D Livewire Segmentation of Objects with Arbitrarily Topologies. Computerized Medical Imaging and Graphics, 32(8):639-650, 2008. Keyword(s): Segmentation, Software and Tools, User Interaction, Graph based. [bibtex-key = cmig2008]



3. Ghassan Hamarneh, Rafeef Abugharbieh, and Tim McInerney. Medial Profiles for Modeling Deformation and Statistical Analysis of Shape and their Use in Medical Image Segmentation.. International Journal of Shape Modeling (IJSM), 10(2):187-209, 2004. Keyword(s): Segmentation, Shape Modelling and Analysis, Deformable Models, Medial-based Shape Representation. [bibtex-key = ijsm2004]



4. Rafeef Abugharbieh, Ghassan Hamarneh, Tomas Gustavsson, and Clemens Kaminski. Level Set Curve Matching and Particle Image Velocimetry for Resolving Chemistry and Turbulence Interactions in Propagating Flames. Journal of Mathematical Imaging and Vision, 19(3):199-218, 2003. Keyword(s): Registration and Matching. [bibtex-key = jmiv2003]



5. Rafeef Abugharbieh, Ghassan Hamarneh, Tomas Gustavsson, and Clemens Kaminski. Flame Front Tracking by Laser Induced Fluorescence Spectroscopy and Advanced Image Analysis. Journal of Optics Express, 8(5):278-287, 2001. Keyword(s): Segmentation, Registration and Matching. [bibtex-key = opex2001]

1. Krishna Nand, Ghassan Hamarneh, and Rafeef Abugharbieh. Diffusion Tensor Image Processing using Biquaternions. In IEEE International Symposium on Biomedical Imaging (IEEE ISBI), pages 538-541, 2012. Keyword(s): Diffusion MRI. [bibtex-key = isbi2012b]



2. Krishna Nand, Rafeef Abugharbieh, Brian Booth, and Ghassan Hamarneh. Detecting Structure in Diffusion Tensor MR Images. In Lecture Notes in Computer Science, Medical Image Computing and Computer-Assisted Intervention (MICCAI), volume 6892, pages 90-97, 2011. Keyword(s): Diffusion MRI, Processing. [bibtex-key = miccai2011c]



3. Andrew Top, Ghassan Hamarneh, and Rafeef Abugharbieh. Active Learning for Interactive 3D Image Segmentation. In Lecture Notes in Computer Science, Medical Image Computing and Computer-Assisted Intervention (MICCAI), volume 6893, pages 603-610, 2011. Keyword(s): Uncertainty, User Interaction, Segmentation. [bibtex-key = miccai2011b]



4. Bernard Ng, Rafeef Abugharbieh, and Ghassan Hamarneh. Group MRF for fMRI Activation Detection. In IEEE Computer Vision and Pattern Recognition (IEEE CVPR), pages 2887-2894, 2010. Keyword(s): Functional MRI, Segmentation, Graph based. [bibtex-key = cvpr2010b]



5. Bernard Ng, Ghassan Hamarneh, and Rafeef Abugharbieh. Detecting Brain Activation in fMRI Using Group Random Walker. In Lecture Notes in Computer Science, Medical Image Computing and Computer-Assisted Intervention (MICCAI), volume 6362, pages 331-338, 2010. Keyword(s): Functional MRI, Segmentation, Graph based. [bibtex-key = miccai2010d]



6. Bernard Ng, Arash Vahdat, Ghassan Hamarneh, and Rafeef Abugharbieh. Generalized Sparse Classifiers for Decoding Cognitive States in fMRI. In Medical Image Computing and Computer-Assisted Intervention Workshop on Machine Learning in Medical Imaging (MICCAI MLMI), volume 6357, pages 108-115, 2010. Keyword(s): Functional MRI, Segmentation. [bibtex-key = miccai_mlmi2010]



7. Josna Rao, Rafeef Abugharbieh, and Ghassan Hamarneh. Adaptive Regularization for Image Segmentation Using Local Image Curvature Cues. In European Conference on Computer Vision (ECCV), pages 651-665, 2010. Keyword(s): Segmentation, Optimization, Graph based. [bibtex-key = eccv2010]



8. Lisa Tang, Ghassan Hamarneh, and Rafeef Abugharbieh. Reliability-Driven, Spatially-Adaptive Regularization for Deformable Registration. In Workshop on Biomedical Image Registration (WBIR), pages 173-185, 2010. Keyword(s): Registration and Matching. [bibtex-key = wbir2010]



9. Andrew Top, Ghassan Hamarneh, and Rafeef Abugharbieh. Spotlight: Automated Confidence-based User Guidance for Increasing Efficiency in Interactive 3D Image Segmentation. In Medical Image Computing and Computer-Assisted Intervention Workshop on Medical Computer Vision (MICCAI MCV), volume 6533, pages 204-213, 2010. Keyword(s): Uncertainty, User Interaction, Segmentation. [bibtex-key = miccai_mcv2010]



10. Bernard Ng, Rafeef Abugharbieh, Ghassan Hamarneh, and Martin McKeown. Random Walker Based Estimation and Spatial Analysis of Probabilistic fMRI Activation Maps. In Medical Image Computing and Computer-Assisted Intervention Workshop on Statistical modeling and detection issues in intra- and inter-subject functional MRI data analysis (MICCAI fMRI), pages 37-44, 2009. Keyword(s): Functional MRI, Segmentation, Graph based. [bibtex-key = miccai_fmri2009]



11. Josna Rao, Ghassan Hamarneh, and Rafeef Abugharbieh. Adaptive Contextual Energy Parameterization for Automated Image Segmentation. In Lecture Notes in Computer Science, International Symposium on Visual Computing: Special Track on Optimization for Vision, Graphics and Medical Imaging: Theory and Applications (ISVC OVGMI), volume 5875-I, pages 1089-1100, 2009. Keyword(s): Optimization, Segmentation. [bibtex-key = isvc2009c]



12. Miranda Poon, Ghassan Hamarneh, and Rafeef Abugharbieh. Live-Vessel: Extending Livewire for Simultaneous Extraction of Optimal Medial and Boundary Paths in Vascular Images. In Lecture Notes in Computer Science, Medical Image Computing and Computer-Assisted Intervention (MICCAI), volume 4792, pages 444-451, 2007. Keyword(s): Deformable Models, Segmentation, Vascular (branching / tubular), Graph based. [bibtex-key = miccai2007a]



13. Miranda Poon, Ghassan Hamarneh, and Rafeef Abugharbieh. Segmentation of Complex Objects with Non-Spherical Topologies from Volumetric Medical Images using 3D Livewire. In SPIE Medical Imaging, volume 6512-31, pages 1-10, 2007. Keyword(s): Segmentation, User Interaction, Graph based. [bibtex-key = spiemi2007a]



14. Rafeef Abugharbieh, Tomas Gustavsson, Clemens Kaminski, and Ghassan Hamarneh. Flame Front Matching and Tracking in PLIF Images using Geodesic Paths and Level Sets. In IEEE International Conference on Computer Vision workshop on Variational and Level Set Methods in Computer Vision (IEEE ICCV VLSM), pages 112-118, 2001. Keyword(s): Segmentation, Registration and Matching. [bibtex-key = iccv_vlsm2001]



15. Rafeef Abugharbieh, Ghassan Hamarneh, and Tomas Gustavsson. Review - Active Shape Models - Part II: Image Search and Classification. In Swedish Symposium on Image Analysis (SSIA), pages 129-132, 1998. Keyword(s): Segmentation, Shape Modelling and Analysis, Deformable Models. [bibtex-key = ssab1998b]



16. Ghassan Hamarneh, Rafeef Abugharbieh, and Tomas Gustavsson. Review - Active Shape Models - Part I: Modeling Shape and Gray Level Variation. In Swedish Symposium on Image Analysis (SSIA), pages 125-128, 1998. Keyword(s): Segmentation, Shape Modelling and Analysis, Deformable Models. [bibtex-key = ssab1998a]



17. Tomas Gustavsson, Rafeef Abugharbieh, Ghassan Hamarneh, and Quan Liang. Implementation and Comparison of Four Different Boundary Detection Algorithms for Quantitative Ultrasonic Measurements of the Human Carotid Artery. In IEEE Computers in Cardiology (IEEE CinC), volume 24, pages 69-72, 1997. Keyword(s): Segmentation. [bibtex-key = cic1997]

1. Josna Rao, Rafeef Abugharbieh, and Ghassan Hamarneh. Adaptive Regularization for Image Segmentation Using Local Image Curvature Cues. Technical report TR 2010-08, School of Computing Science, Simon Fraser University, Burnaby, BC, Canada, June 2010. Keyword(s): Segmentation, Graph based. [bibtex-key = sfu_cs2010_08]



2. Ryan Dickie, Ghassan Hamarneh, and Rafeef Abugharbieh. Live-vessel: Interactive vascular image segmentation with simultaneous extraction of optimal medial and boundary paths. Technical report TR 2009-23, School of Computing Science, Simon Fraser University, Burnaby, BC, Canada, November 2009. Keyword(s): Segmentation, Vascular (branching / tubular), Color, Optimization, Software and Tools, User Interaction, Medial-based Shape Representation, Graph based. [bibtex-key = sfu_cs2009_23]



3. Josna Rao, Ghassan Hamarneh, and Rafeef Abugharbieh. Automatic Spatially-Adaptive Balancing of Energy Terms for Image Segmentation. Technical report TR 2009-10, School of Computing Science, Simon Fraser University, Burnaby, BC, Canada, April 2009. Keyword(s): Optimization, Segmentation. [bibtex-key = sfu_cs2009_10]

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