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Conference articles
2014
  1. Alborz Amir-Khalili, Jean-Marc Peyrat, Julien Abi-Nahed, and Osama Al-Alao, Abdulla Al-Ansari, Ghassan Hamarneh, and Rafeef Abugharbieh. Auto Localization and Segmentation of Occluded Vessels in Robot-Assisted Partial Nephrectomy. In Lecture Notes in Computer Science, Medical Image Computing and Computer-Assisted Intervention (MICCAI), volume 8673, pages 407-414, 2014. Keyword(s): Spatio-Temporal, Segmentation, Image-Guided Surgery. [bibtex-key = miccai2014d]


  2. Shawn Andrews, Lisa Tang, and Ghassan Hamarneh. Fast Random Walker Image Registration using Precomputation. In IEEE International Symposium on Biomedical Imaging (IEEE ISBI), pages 189-192, 2014. Keyword(s): Registration and Matching, Fast MIA. [bibtex-key = isbi2014d]


  3. Shawn Andrews, Lisa Tang, and Ghassan Hamarneh. Topology Preservation and Anatomical Feasibility in Random Walker Image Registration. In Lecture Notes in Computer Science, Medical Image Computing and Computer-Assisted Intervention (MICCAI), volume 8673, pages 210-217, 2014. Keyword(s): Registration and Matching. [bibtex-key = miccai2014a]


  4. Brian Booth and Ghassan Hamarneh. DTI-DeformIt: Generating Ground-Truth Validation Data for Diffusion Tensor Image Analysis Tasks. In IEEE International Symposium on Biomedical Imaging (IEEE ISBI), pages 730-733, 2014. Keyword(s): Diffusion MRI, Simulation, Software and Tools, Validation, Physical Modelling. [bibtex-key = isbi2014b]


  5. Ivan Figueroa, Jean-Marc Peyrat, Ghassan Hamarneh, and Rafeef Abugharbieh. Biomechanical Kidney Model for Predicting Tumor Displacement in the Presence of External Pressure Load. In IEEE International Symposium on Biomedical Imaging (IEEE ISBI), pages 810-813, 2014. Keyword(s): Physical Modelling. [bibtex-key = isbi2014e]


  6. Ghassan Hamarneh, Alborz Amir-Khalili, Masoud Nosrati, Ivan Figueroa, Jeremy Kawahara, Osama Al-Alao, Jean-Marc Peyrat, Julien Abi-Nahed, Abdulla Al-Ansari, and Rafeef Abugharbieh. Towards Multi-Modal Image-Guided Tumour Identification in Robot-Assisted Partial Nephrectomy. In IEEE Middle East Conference on Biomedical Engineering (IEEE MECBME), pages 159-162, 2014. Keyword(s): Image-Guided Surgery, Segmentation, Registration and Matching, Physical Modelling. [bibtex-key = mecbme2014]


  7. Jeremy Kawahara, Jean-Marc Peyrat, Julien Abi-Nahed, Osama Al-Alao, Abdulla Al-Ansari, Rafeef Abugharbieh, and Ghassan Hamarneh. Automatic Labelling of Tumourous vs Tumour-Free Frames in Free-Hand Laparoscopic Ultrasound Video. In Lecture Notes in Computer Science, Medical Image Computing and Computer-Assisted Intervention (MICCAI), volume 8674, pages 677-684, 2014. Keyword(s): Spatio-Temporal, Machine Learning, Segmentation, Image-Guided Surgery. [bibtex-key = miccai2014c]


  8. Hengameh Mirzaalian and Ghassan Hamarneh. Automatic Globally-Optimal Pictorial Structures with Random Decision Forest Based Likelihoods For Cephalometric X-Ray Landmark Detection. In Automatic Cephalometric X-Ray Landmark Detection Challenge 2014, in conjunction with IEEE International Symposium on Biomedical Imaging (IEEE ISBI), pages 1-12, 2014. Keyword(s): Machine Learning, Optimization. [bibtex-key = isbi2014_chlg_ceph]


  9. Masoud Nosrati and Ghassan Hamarneh. A Variational Approach for Overlapping Cell Segmentation. In Overlapping Cervical Cytology Image Segmentation Challenge, in conjunction with IEEE International Symposium on Biomedical Imaging (IEEE ISBI), pages 1-2, 2014. Keyword(s): Segmentation. [bibtex-key = isbi2014_chlg_cell]


  10. Masoud Nosrati, Jean-Marc Peyrat, Julien Abi-Nahed, Osama Al-Alao, Abdulla Al-Ansari, Rafeef Abugharbieh, and Ghassan Hamarneh. Efficient Multi-Organ Segmentation in Multi-View Endoscopic Videos using Pre-Op Priors. In Lecture Notes in Computer Science, Medical Image Computing and Computer-Assisted Intervention (MICCAI), volume 8674, pages 324-331, 2014. Keyword(s): Fast MIA, Registration and Matching, Segmentation, Optimization, Image-Guided Surgery. [bibtex-key = miccai2014b]


  11. Lisa Tang and Ghassan Hamarneh. Reducing Computational Complexity of Random Walk Image Registration via Cost Aggregation. In IEEE International Symposium on Biomedical Imaging (IEEE ISBI), pages 576-579, 2014. Keyword(s): Registration and Matching, Fast MIA. [bibtex-key = isbi2014c]


  12. Roja Zakariaee, Colin J. Brown, Ghassan Hamarneh, Christina Parsons, and Ingrid Spadinger. Estimation of Bladder-Wall Cumulative Dose in Multi-Fraction Image-Based Gynaecological Brachytherapy Using Deformable Point Set Registration. In Canadian Organization of Medical Physicists 60th Annual Scientific Meeting (COMP), 2014. Keyword(s): Registration and Matching. [bibtex-key = comp2014]


  13. Mengliu Zhao and Ghassan Hamarneh. Bifurcation Detection in 3D Vascular Images Using Novel Features and Random Forest. In IEEE International Symposium on Biomedical Imaging (IEEE ISBI), pages 421-424, 2014. Keyword(s): Vascular (branching / tubular), Machine Learning. [bibtex-key = isbi2014a]


2013
  1. Alborz Amir-Khalili, Masoud Nosrati, Jean-Marc Peyrat, Ghassan Hamarneh, and Rafeef Abugharbieh. Uncertainty-Encoded Augmented Reality for Robot-Assisted Partial Nephrectomy: A Phantom Study. In Medical Image Computing and Computer-Assisted Intervention Workshop on Medical Imaging and Augmented Reality (MICCAI MIAR), volume 8090, pages 182-191, 2013. Keyword(s): Uncertainty, Image-Guided Surgery, Stereo/Multi-View Reconstruction. [bibtex-key = miccai_miar2013]


  2. Alborz Amir-Khalili, Jean-Marc Peyrat, Ghassan Hamarneh, and Rafeef Abugharbieh. 3D Surface Reconstruction of Organs using Patient-Specific Shape Priors in Robot-Assisted Laparoscopic Surgery. In Medical Image Computing and Computer-Assisted Intervention Workshop on on Abdominal Imaging: Computational and Clinical Applications (MICCAI ABDI), volume 8198, pages 184-193, 2013. Keyword(s): Image-Guided Surgery, Stereo/Multi-View Reconstruction. [bibtex-key = miccai_abdi2013]


  3. Brian Booth and Ghassan Hamarneh. A Cross-sectional Piecewise Constant Model for Segmenting Highly Curved Fiber Tracts in Diffusion MR Images. In Lecture Notes in Computer Science, Medical Image Computing and Computer-Assisted Intervention (MICCAI), volume 8151, pages 469-476, 2013. Keyword(s): Diffusion MRI, Segmentation. [bibtex-key = miccai2013b]


  4. Colin J. Brown, Brian Booth, and Ghassan Hamarneh. K-Confidence: Assessing Uncertainty in Tractography using k Optimal Paths. In IEEE International Symposium on Biomedical Imaging (IEEE ISBI), pages 250-253, 2013. Keyword(s): Diffusion MRI, Optimization, Uncertainty. [bibtex-key = isbi2013a]


  5. Colin J. Brown, Brian Booth, and Ghassan Hamarneh. Uncertainty in Tractography via Tract Confidence Regions. In Medical Image Computing and Computer-Assisted Intervention Workshop on Computational Diffusion MRI (MICCAI CDMRI), pages 13-22, 2013. Keyword(s): Uncertainty, Diffusion MRI. [bibtex-key = miccai_cdmri2013]


  6. Ghassan Hamarneh, Alborz Amir-Khalili, Masoud Nosrati, Ivan Figueroa, Osama Al-Alao, Abdulla Al-Ansari, Julien Abi-Nahed, Jean-Marc Peyrat, and Rafeef Abugharbieh. Towards Image-Guided Minimally Invasive Robotic Surgery for Partial Nephrectomy. In The Qatar Foundation Annual Research Conference (QF-ARC), 2013. Keyword(s): Image-Guided Surgery, Stereo/Multi-View Reconstruction. [bibtex-key = qfarc2013]


  7. Jeremy Kawahara, Chris McIntosh, Roger Tam, and Ghassan Hamarneh. Augmenting Auto-context with Global Geometric Features for Spinal Cord Segmentation. In Medical Image Computing and Computer-Assisted Intervention Workshop on Machine Learning in Medical Imaging (MICCAI MLMI), volume 8184, pages 212-219, 2013. Keyword(s): Segmentation, Machine Learning, Shape Modelling and Analysis. [bibtex-key = miccai_mlmi2013a]


  8. Jeremy Kawahara, Chris McIntosh, Roger Tam, and Ghassan Hamarneh. Globally Optimal Spinal Cord Segmentation using A Minimal Path in High Dimensions. In IEEE International Symposium on Biomedical Imaging (IEEE ISBI), pages 836-839, 2013. Keyword(s): Segmentation, Optimization, Vascular (branching / tubular). [bibtex-key = isbi2013b]


  9. Jeremy Kawahara, Chris McIntosh, Roger Tam, and Ghassan Hamarneh. Novel Morphological and Appearance Features for Predicting Physical Disability from MR Images in Multiple Sclerosis Patients. In Medical Image Computing and Computer-Assisted Intervention Workshop on Computational Methods and Clinical Applications for Spine Imaging (MICCAI CSI), pages ?-?, 2013. Keyword(s): Machine Learning, Shape Modelling and Analysis. [bibtex-key = miccai_csi2013]


  10. Tayebeh Lotfi, Lisa Tang, Shawn Andrews, and Ghassan Hamarneh. Improving probabilistic image registration via reinforcement learning and uncertainty evaluation. In Medical Image Computing and Computer-Assisted Intervention Workshop on Machine Learning in Medical Imaging (MICCAI MLMI), volume 8184, pages 188-195, 2013. Keyword(s): Uncertainty, Registration and Matching, Machine Learning. [bibtex-key = miccai_mlmi2013b]


  11. Hamidreza Mirzaei, Lisa Tang, Rene Werner, and Ghassan Hamarneh. Decision Forests with Spatio-temporal Features for Graph-based Tumour Segmentation in 4D Lung CT. In Medical Image Computing and Computer-Assisted Intervention Workshop on Machine Learning in Medical Imaging (MICCAI MLMI), volume 8184, pages 179-186, 2013. Keyword(s): Segmentation, Machine Learning, Functional/Molecular/Dynamic Imaging. [bibtex-key = miccai_mlmi2013c]


  12. Masoud Nosrati, Shawn Andrews, and Ghassan Hamarneh. Bounded Labeling Function for Global Segmentation of Multi-Part Objects with Geometric Constraints. In IEEE International Conference on Computer Vision (IEEE ICCV), pages 2032-2039, 2013. Keyword(s): Optimization, Segmentation. [bibtex-key = iccv2013]


  13. Masoud Nosrati and Ghassan Hamarneh. Segmentation of Cells with Partial Occlusion and Part Configuration Constraint using Evolutionary Computation. In Lecture Notes in Computer Science, Medical Image Computing and Computer-Assisted Intervention (MICCAI), volume 8149, pages 461-468, 2013. Keyword(s): Optimization, Segmentation. [bibtex-key = miccai2013c]


  14. Manku Rana, Ghassan Hamarneh, and James Wakeling. Changes to 3D muscle fascicle geometry during contraction. In American Society of Biomechanics (ASB), 2013. Keyword(s): Shape Modelling and Analysis, Tracking. [bibtex-key = asb2013]


  15. Lisa Tang and Ghassan Hamarneh. Random walks with efficient search and contextually adapted image similarity for deformable registration. In Lecture Notes in Computer Science, Medical Image Computing and Computer-Assisted Intervention (MICCAI), volume 8150, pages 43-50, 2013. Keyword(s): Optimization, Registration and Matching, Uncertainty. [bibtex-key = miccai2013a]


2012
  1. Shawn Andrews, Brian Booth, Steven Miller, Vann Chau, Ken Poskitt, and Ghassan Hamarneh. Towards highly-automated detection of white matter injury in prematurely born babies from diffusion tensor MRI. In NeuroDevNet Brain Development Conference, pages 99, 2012. Keyword(s): Diffusion MRI, Neurodevelopment. [bibtex-key = neurodevnet2012]


  2. Daniel Baboiu and Ghassan Hamarneh. Vascular Bifurcation Detection in Scale-Space. In IEEE workshop on Mathematical Methods for Biomedical Image Analysis (IEEE MMBIA), pages 41-46, 2012. Keyword(s): Vascular (branching / tubular). [bibtex-key = mmbia2012b]


  3. Brian Booth and Ghassan Hamarneh. Competitive Tractography for Extracting Brain Connectivity from Diffusion MRI. In The 6th Annual Canadian Neuroscience Meeting (CAN-ACN), 2012. Keyword(s): Diffusion MRI, Graph based. [bibtex-key = can-acn2012]


  4. Brian Booth and Ghassan Hamarneh. Global Multi-Region Competitive Tractography. In IEEE workshop on Mathematical Methods for Biomedical Image Analysis (IEEE MMBIA), pages 73-78, 2012. Keyword(s): Diffusion MRI, Uncertainty. [bibtex-key = mmbia2012a]


  5. Brian Booth, Steven Miller, Vann Chau, Ken Poskitt, and Ghassan Hamarneh. Modelling the Healthy Premature Infant Brain. In Child and Family Research Imaging Facility Grand Opening Event, 2012. Keyword(s): Diffusion MRI, Neurodevelopment. [bibtex-key = cfri2012]


  6. Hengameh Mirzaalian, Tim Lee, and Ghassan Hamarneh. Learning Features for Streak Detection in Dermoscopic Color Images using Localized Radial Flux of Principal Intensity Curvature. In IEEE workshop on Mathematical Methods for Biomedical Image Analysis (IEEE MMBIA), pages 97-101, 2012. Keyword(s): Color, Machine Learning, Vascular (branching / tubular). [bibtex-key = mmbia2012d]


  7. Hengameh Mirzaalian, Tim Lee, and Ghassan Hamarneh. Uncertainty-based Feature Learning for Skin Lesion Matching using a High Order MRF Optimization Framework. In Lecture Notes in Computer Science, Medical Image Computing and Computer-Assisted Intervention (MICCAI), volume 7511, pages 98-105, 2012. Keyword(s): Machine Learning, Uncertainty, Optimization. [bibtex-key = miccai2012]


  8. Hengameh Mirzaalian, Ahmed Saad, and Ghassan Hamarneh. Iterative Segmentation and Motion Correction for Dynamic PET Images based on Radioactive Tracer Kinetics. In IEEE workshop on Mathematical Methods for Biomedical Image Analysis (IEEE MMBIA), pages 265-270, 2012. Keyword(s): Functional/Molecular/Dynamic Imaging, Segmentation, Registration and Matching, Tracking. [bibtex-key = mmbia2012c]


  9. 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]


  10. Fahime Sheikhzadeh, Roger Tam, and Ghassan Hamarneh. Spatial Distribution of Lesions as a Surrogate Biomarker for Disability in Multiple Sclerosis. In IEEE workshop on Mathematical Methods for Biomedical Image Analysis (IEEE MMBIA), pages 273-278, 2012. Keyword(s): Shape Modelling and Analysis. [bibtex-key = mmbia2012e]


  11. Lisa Tang, Alfred O Hero, and Ghassan Hamarneh. Locally-Adaptive Similarity Metric for Deformable Medical Image Registration. In IEEE International Symposium on Biomedical Imaging (IEEE ISBI), pages 728-731, 2012. Keyword(s): Machine Learning, Registration and Matching. [bibtex-key = isbi2012a]


2011
  1. Shawn Andrews, Ghassan Hamarneh, Azadeh Yazdanpanah, Bahareh HajGhanbari, and W. Darlene Reid. Probabilistic Multi-Shape Segmentation of Knee Extensor and Flexor Muscles. In Lecture Notes in Computer Science, Medical Image Computing and Computer-Assisted Intervention (MICCAI), volume 6893, pages 651-658, 2011. Keyword(s): Segmentation, Uncertainty, Optimization. [bibtex-key = miccai2011a]


  2. Shawn Andrews, Chris McIntosh, and Ghassan Hamarneh. Convex Multi-Region Probabilistic Segmentation with Shape Prior in the Isometric Logratio Transformation Space. In IEEE International Conference on Computer Vision (IEEE ICCV), pages 2096-2103, 2011. Keyword(s): Optimization, Segmentation, Uncertainty. [bibtex-key = iccv2011]


  3. Brian Booth and Ghassan Hamarneh. Consistent Information Content Estimation for Diffusion Tensor MR Images. In IEEE Conference on Healthcare Informatics, Imaging and Systems Biology (IEEE HISB), pages 166-173, 2011. Keyword(s): Diffusion MRI. [bibtex-key = hisb2011a]


  4. Brian Booth and Ghassan Hamarneh. Exact Integration of Diffusion Orientation Distribution Functions for Graph-Based Diffusion MRI Analysis. In IEEE International Symposium on Biomedical Imaging (IEEE ISBI), pages 935-938, 2011. Keyword(s): Diffusion MRI, Graph based. [bibtex-key = isbi2011]


  5. Bahareh HajGhanbari, Ghassan Hamarneh, Neda Changizi, Aaron Ward, and W. Darlene Reid. 3D shape analysis of thigh muscles: people with Chronic Obstructive Pulmonary Disease versus healthy older adults. In Canadian Physiotherapy Association Congress, pages 1, 2011. Keyword(s): Shape Modelling and Analysis, Machine Learning. [bibtex-key = cpa2011]


  6. Bahareh HajGhanbari, Ghassan Hamarneh, Neda Changizi, Aaron Ward, and W. Darlene Reid. MRI-based Three dimensional shape analysis of thigh muscles: people with Chronic Obstructive Pulmonary Disease versus healthy older adults. In Heart+Lung Health Fest, pages 1, 2011. Keyword(s): Shape Modelling and Analysis, Machine Learning. [bibtex-key = hlf2011]


  7. Chris McIntosh, Ghassan Hamarneh, Matt Toom, and Roger Tam. Spinal Cord Segmentation for Volume Estimation in Healthy and Multiple Sclerosis Subjects using Crawlers and Minimal Paths. In IEEE Conference on Healthcare Informatics, Imaging and Systems Biology (IEEE HISB), pages 25-31, 2011. Keyword(s): Artificial Life, Deformable Organisms, Segmentation, Vascular (branching / tubular). [bibtex-key = hisb2011b]


  8. Hengameh Mirzaalian, Ghassan Hamarneh, Bahareh HajGhanbari, and W. Darlene Reid. 3D Shape Analysis of the Knee Extensor and Flexor Muscles in Patients with COPD using Mesh Projection-based Features. In Medical Image Computing and Computer-Assisted Intervention Workshop on Mesh Processing in Medical Image Analysis (MICCAI MeshMed), pages 1-8, 2011. Keyword(s): Medial-based Shape Representation, Shape Modelling and Analysis. [bibtex-key = miccai_meshmed2011]


  9. 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]


  10. Manku Rana, Ghassan Hamarneh, and James Wakeling. Automated methods for determination of 3D muscle fascicle orientation in human muscle using free hand ultrasound. In American Society of Biomechanics (ASB), 2011. Keyword(s): Shape Modelling and Analysis, Tracking. [bibtex-key = asb2011]


  11. Andrea Tagliasacchi, Matt Olson, Hao (Richard) Zhang, Ghassan Hamarneh, and Daniel Cohen-Or. VASE: Volume-Aware Surface Evolution for Surface Reconstruction from Incomplete Point Clouds. In Symposium on Geometry Processing (SGP) (also appears in the Special Issue of the Journal Computer Graphics Forum), pages 1563-1571, 2011. Keyword(s): Deformable Models, Shape Modelling and Analysis. [bibtex-key = sgp2011]


  12. Lisa Tang, Ghassan Hamarneh, and Tim Bressmann. A Machine Learning Approach to Tongue Motion Analysis in 2D Ultrasound Image Sequences. In Medical Image Computing and Computer-Assisted Intervention Workshop on Machine Learning in Medical Imaging (MICCAI MLMI), volume 7009, pages 151-158, 2011. Keyword(s): Tracking, Machine Learning. [bibtex-key = miccai_mlmi2011]


  13. 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]


  14. Oliver van Kaick, Andrea Tagliasacchi, Oana Sidi, Hao (Richard) Zhang, Daniel Cohen-Or, Lior Wolf, and Ghassan Hamarneh. Prior Knowledge for Part Correspondence. In Eurographics (also appears in the Special Issue of the Journal Computer Graphics Forum), pages 1-10, 2011. Keyword(s): Segmentation, Registration and Matching, Shape Modelling and Analysis. [bibtex-key = eg2011]


2010
  1. Shawn Andrews, Ghassan Hamarneh, and Ahmed Saad. Fast Random Walker with Priors using Precomputation for Interactive Medical Image Segmentation. In Lecture Notes in Computer Science, Medical Image Computing and Computer-Assisted Intervention (MICCAI), volume 6363, pages 9-16, 2010. Keyword(s): Segmentation, Graph based. [bibtex-key = miccai2010b]


  2. Neda Changizi and Ghassan Hamarneh. Probabilistic Multi-Shape Representation using an Isometric Log-Ratio Mapping. In Lecture Notes in Computer Science, Medical Image Computing and Computer-Assisted Intervention (MICCAI), volume 6363, pages 563-570, 2010. Keyword(s): Shape Modelling and Analysis, Uncertainty. [bibtex-key = miccai2010a]


  3. Neda Changizi and Ghassan Hamarneh. Probabilistic multi-label representation for anatomical statistical shape analysis. In SFU Exchange, 2010. Keyword(s): Shape Modelling and Analysis, Uncertainty. [bibtex-key = sfu_exchange2010b]


  4. Neda Changizi, Ghassan Hamarneh, Omer Ishaq, Aaron Ward, and Roger Tam. Extraction of the Plane of Minimal Cross-Sectional Area of the Corpus Callosum using Template-Driven Segmentation. In Lecture Notes in Computer Science, Medical Image Computing and Computer-Assisted Intervention (MICCAI), volume 6363, pages 17-24, 2010. Keyword(s): Registration and Matching, Segmentation, Shape Modelling and Analysis. [bibtex-key = miccai2010c]


  5. Hengameh Mirzaalian and Ghassan Hamarneh. Vessel Scale Selection using MRF Optimization. In IEEE Computer Vision and Pattern Recognition (IEEE CVPR), pages 3273-3278, 2010. Keyword(s): Vascular (branching / tubular), Optimization, Graph based. [bibtex-key = cvpr2010a]


  6. Hengameh Mirzaalian, Ghassan Hamarneh, and Tim Lee. Back Atlas for Tracking Pigmented Skin Lesions. In Annual UBC and CIHR Skin Research Day, 2010. Keyword(s): Registration and Matching, Tracking. [bibtex-key = skin2010]


  7. Shane Mottishaw, Sergey Zhuravlev, Lisa Tang, Alexandra Fedorova, and Ghassan Hamarneh. An Evaluation of Parallelization Techniques for MRF Image Segmentation. In International Workshop on High-Performance Medical Image Computing for Image-Assisted Clinical Intervention and Decision-Making (MICCAI HP), pages 10 pages, 2010. Keyword(s): Segmentation, Software, Fast MIA. [bibtex-key = miccai_hp2010b]


  8. 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/Molecular/Dynamic Imaging, Segmentation, Graph based. [bibtex-key = cvpr2010b]


  9. 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/Molecular/Dynamic Imaging, Segmentation, Graph based. [bibtex-key = miccai2010d]


  10. 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/Molecular/Dynamic Imaging, Segmentation. [bibtex-key = miccai_mlmi2010]


  11. Peyman Rahmati, Ghassan Hamarneh, Doron Nussbaum, and Andy Adler. A New Preprocessing Filter for Digital Mammograms. In International Conference on Image and Signal Processing (ICISP), pages 585-592, 2010. Keyword(s): Processing. [bibtex-key = icisp2010]


  12. Manku Rana, Ghassan Hamarneh, and James Wakeling. In- vivo determination of 3D muscle architecture of the human triceps muscle using free hand ultrasound. In Society of Integrative and Comparative Biology (SICB), 2010. Keyword(s): Shape Modelling and Analysis, Tracking. [bibtex-key = sicb2010]


  13. 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]


  14. Ahmed Saad, Ghassan Hamarneh, and Torsten Moeller. Exploration and Visualization of Segmentation Uncertainty using Shape and Appearance Prior Information. In IEEE Visualization (IEEE Vis) (also appears in the Special Issue of the Journal IEEE Transactions on Visualization and Computer Graphics), pages 1366-1375, 2010. Keyword(s): User Interaction, Segmentation, Uncertainty, Spatio-Temporal. [bibtex-key = vis2010]


  15. Ahmed Saad, Torsten Moeller, and Ghassan Hamarneh. ProbExplorer: An Uncertainty-based Visual Analysis Tool for Medical Imaging. In Eurographics/IEEE-VGTC Symposium on Visualization (IEEE EuroVis) (also appears in the Special Issue of the Journal Computer Graphics Forum)., volume 29, pages 1113-1122, 2010. Keyword(s): Software and Tools, Segmentation, Uncertainty, User Interaction, Visualization, Spatio-Temporal. [bibtex-key = eurovis2010]


  16. Ahmed Saad, Torsten Moeller, and Ghassan Hamarneh. ProbExplorer: Uncertainty-guided Exploration and Editing of Probabilistic Medical Image Segmentation. In SFU Exchange, 2010. Keyword(s): Software and Tools, Segmentation, Uncertainty, User Interaction, Visualization, Spatio-Temporal. [bibtex-key = sfu_exchange2010a]


  17. Ben Smith, Ghassan Hamarneh, and Ahmed Saad. Fast GPU Fitting of Kinetic Models for Dynamic PET. In International Workshop on High-Performance Medical Image Computing for Image-Assisted Clinical Intervention and Decision-Making (MICCAI HP), pages 10 pages, 2010. Keyword(s): Functional/Molecular/Dynamic Imaging, Software, Fast MIA. [bibtex-key = miccai_hp2010a]


  18. Lisa Tang and Ghassan Hamarneh. Graph-based tracking of the tongue contour in ultrasound sequences with adaptive temporal regularization. In IEEE workshop on Mathematical Methods for Biomedical Image Analysis (IEEE MMBIA) in conjunction with the IEEE Conference on Computer Vision and Pattern Recognition (IEEE CVPR), pages 154-161, 2010. Keyword(s): Tracking, Registration and Matching, Graph based. [bibtex-key = mmbia2010]


  19. 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]


  20. 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]


  21. Oliver van Kaick, Hao (Richard) Zhang, Ghassan Hamarneh, and Daniel Cohen-Or. A Survey on Shape Correspondence. In EuroGraphics: State-of-the-Art Report, pages 61-82, 2010. Keyword(s): Registration and Matching, Shape Modelling and Analysis. [bibtex-key = eg2010]


2009
  1. Ghassan Hamarneh. Airway Segmentation using Crawlers and Optimal Paths. In First International Workshop on Dynamic Modeling of the Oral, Pharyngeal and Laryngeal Complex for Biomedical Applications (OPAL), pages 43, 2009. Keyword(s): Deformable Organisms, Segmentation. [bibtex-key = opal2009]


  2. Ghassan Hamarneh. Multi-Label MRF Optimization via a Least Squares s-t Cut. In International Symposium on Visual Computing: Special Track on Optimization for Vision, Graphics and Medical Imaging: Theory and Applications (ISVC OVGMI), volume 5875-I, pages 1055-1066, 2009. Keyword(s): Optimization, Segmentation, Graph based. [bibtex-key = isvc2009a]


  3. Ghassan Hamarneh and Neda Changizi. Barycentric Label Space. In Medical Image Computing and Computer-Assisted Intervention Workshop on Probabilistic Models for Medical Image Analysis (MICCAI PMMIA), pages 162-173, 2009. Keyword(s): Shape Modelling and Analysis, Uncertainty. [bibtex-key = miccai_pmmia2009]


  4. Thomas Humphries, Ahmed Saad, Anna Celler, Ghassan Hamarneh, Torsten Moeller, and Manfred Trummer. Segmentation-Based Regularization of Dynamic SPECT Reconstructions. In IEEE Medical Imaging / Nuclear Science Conference (IEEE MIC/NSS), pages 2849-2852, 2009. Keyword(s): Functional/Molecular/Dynamic Imaging, Segmentation. [bibtex-key = mic2009]


  5. Chris McIntosh and Ghassan Hamarneh. Optimal Weights for Convex Functionals in Medical Image Segmentation. In International Symposium on Visual Computing: Special Track on Optimization for Vision, Graphics and Medical Imaging: Theory and Applications (ISVC OVGMI), volume 5875-I, pages 1079-1088, 2009. Keyword(s): Optimization, Segmentation, Machine Learning. [bibtex-key = isvc2009b]


  6. Hengameh Mirzaalian, Ghassan Hamarneh, and Tim Lee. Graph-based Approach to Skin Mole Matching Incorporating Template-Normalized Coordinates. In IEEE Computer Vision and Pattern Recognition (IEEE CVPR), pages 2152-2159, 2009. Keyword(s): Registration and Matching, Tracking, Graph based. [bibtex-key = cvpr2009]


  7. Hengameh Mirzaalian, Ghassan Hamarneh, and Tim Lee. Skin Mole Matching Incorporating Template-Normalized Coordinates. In Annual UBC and CIHR Skin Research Day, 2009. Keyword(s): Registration and Matching, Tracking, Graph based. [bibtex-key = skin2009]


  8. 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/Molecular/Dynamic Imaging, Segmentation, Graph based. [bibtex-key = miccai_fmri2009]


  9. Manku Rana, Ghassan Hamarneh, and James Wakeling. In- vivo determination of 3D muscle architecture of the human triceps surfae using free hand ultrasound. In Canadian Student Conference in Biomedical Computing (CSCBC), 2009. Keyword(s): Shape Modelling and Analysis, Tracking. [bibtex-key = cscbc2010]


  10. 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]


  11. Maryam Sadeghi, Geoff Tien, Ghassan Hamarneh, and Stella Atkins. Hands-free Interactive Image Segmentation Using Eyegaze. In SPIE Medical Imaging, volume 72601H, pages 1-10, 2009. Keyword(s): Segmentation, User Interaction, Graph based. [bibtex-key = spiemi2009]


  12. Yonas Weldeselassie, Ghassan Hamarneh, Faisal Beg, and Stella Atkins. Novel Decomposition of Tensor Distance into Shape and Orientation Distances. In Medical Image Computing and Computer-Assisted Intervention Workshop on Diffusion Modelling and the Fibre Cup (MICCAI DMFB), pages 173-180, 2009. Keyword(s): Diffusion MRI. [bibtex-key = miccai_dmfc2009]


  13. Yonas Weldeselassie, Ghassan Hamarneh, Samantha Palmer, Martin McKeown, and Stella Atkins. Diffusion Properties of Cortico-Striatal White Matter Tractography As Sensistive Markers of Parkinson's Disease. In The 17th Scientific Meeting and Exhibition of the International Society for Magnetic Resonance in Medicine (ISMRM), 2009. Keyword(s): Diffusion MRI. [bibtex-key = ismrm2009]


  14. Azadeh Yazdanpanah, Ghassan Hamarneh, Ben Smith, and Marinko Sarunic. Intra-retinal Layer Segmentation in Optical Coherence Tomography using an Active Contour Approach. In Lecture Notes in Computer Science, Medical Image Computing and Computer-Assisted Intervention (MICCAI), volume 5762, pages 649-656, 2009. Keyword(s): Deformable Models, Segmentation. [bibtex-key = miccai2009]


  15. Lingshu Yin, Lisa Tang, Ghassan Hamarneh, Anna Celler, Sergey Shcherbinin, Tsien-Fei Fua, Hannah Carolan, Anna Thompson, Mitchell Liu, Cheryl Duzenli, Brad Gill, Finbar Sheehan, John Powe, Daniel Worsley, and Vitali Moiseenko. Evaluating geometrical accuracy of image registration methods in SPECT guided radiation therapy. In Medical Image Computing and Computer-Assisted Intervention Workshop on Geometric accuracy in image guided intervention (MICCAI GAIGI), pages 63-70, 2009. Keyword(s): Registration and Matching. [bibtex-key = miccai_gaigi2009]


  16. Lingshu Yin, Lisa Tang, Ghassan Hamarneh, Vitali Moiseenko, Anna Celler, Sergey Shcherbinin, Tsien-Fei Fua, Anna Thompson, Mitchell Liu, Cheryl Duzenli, Brad Gill, Finbar Sheehan, John Powe, and Daniel Worsley. Quantitative evaluation on the accuracy of image registration methods in SPECT guided radiation therapy for lung cancer patients. In Canadian Organization of Medical Physicists 55th Annual Scientific Meeting (COMP), 2009. Keyword(s): Functional/Molecular/Dynamic Imaging, Registration and Matching. [bibtex-key = comp2009]


2008
  1. Ghassan Hamarneh, Preet Jassi, and Lisa Tang. Simulation of Ground-Truth Validation Data via Physically- and Statistically-based Warps. In Lecture Notes in Computer Science, Medical Image Computing and Computer-Assisted Intervention (MICCAI), volume 5241, pages 459-467, 2008. Keyword(s): Registration and Matching, Segmentation, Shape Modelling and Analysis, Software and Tools, Validation, Simulation, Physical Modelling. [bibtex-key = miccai2008b]


  2. William Ma, Ghassan Hamarneh, Greg Mori, Katie Dinelle, and Vesna Sossi. Motion Estimation for Functional Medical Imaging Studies using a Stereo Video Head Pose Tracking System. In IEEE Medical Imaging / Nuclear Science Conference (IEEE MIC/NSS), pages 4086-4090, 2008. Keyword(s): Tracking, Registration and Matching. [bibtex-key = mic2008]


  3. Manku Rana, Ghassan Hamarneh, and James Wakeling. Automated tracking of muscle fascicle orientation in B-mode ultrasound images. In North American Congress on Biomechanics (NACB), 2008. Keyword(s): Shape Modelling and Analysis, Tracking. [bibtex-key = nacb2008]


  4. Ahmed Saad, Ghassan Hamarneh, Torsten Moeller, and Ben Smith. Kinetic Modeling based Probabilistic Segmentation for Molecular Images. In Lecture Notes in Computer Science, Medical Image Computing and Computer-Assisted Intervention (MICCAI), volume 5241, pages 244-252, 2008. Keyword(s): Functional/Molecular/Dynamic Imaging, Segmentation, Uncertainty, Graph based. [bibtex-key = miccai2008a]


  5. Lilong Shi, Brian Funt, and Ghassan Hamarneh. Quaternion Color Curvature. In Color Imaging (IS&T/SID CI), pages 338-341, 2008. Keyword(s): Processing, Color, Vascular (branching / tubular). [bibtex-key = ci2008]


  6. Ben Smith, Ahmed Saad, Ghassan Hamarneh, and Torsten Moeller. Recovery of Dynamic PET Regions via Simultaneous Segmentation and Deconvolution. In Ghassan Hamarneh and Rafeef Abugharbieh, editors, Medical Image Computing and Computer-Assisted Intervention Workshop on Analysis of Functional Medical Image Data (MICCAI functional), pages 33-40, 2008. Keyword(s): Functional/Molecular/Dynamic Imaging, Segmentation. [bibtex-key = miccai_func2008]


  7. Lisa Tang and Ghassan Hamarneh. SMRFI: Shape Matching via Registration of Vector-Valued Feature Images. In IEEE Computer Vision and Pattern Recognition (IEEE CVPR), pages 1-8, 2008. Keyword(s): Registration and Matching. [bibtex-key = cvpr2008]


  8. Lisa Tang, Ghassan Hamarneh, and Anna Celler. Increasing Accuracy of Mutual Information-Based Registration of Tumor SPECT and CT Images with Dual-isotope Studies. In Society for Imaging Informatics in Medicine Annual Meeting (SIIM), pages 59-61, 2008. Keyword(s): Registration and Matching. [bibtex-key = siim2008]


2007
  1. Warren Cheung and Ghassan Hamarneh. $n$-SIFT: $n$-dimensional Scale Invariant Feature Transform for Matching Medical Images. In IEEE International Symposium on Biomedical Imaging (IEEE ISBI), pages 720-723, 2007. Keyword(s): Registration and Matching. [bibtex-key = isbi2007b]


  2. Mark Drew and Ghassan Hamarneh. Visualizing Diffusion Tensor Dissimilarity using an ICA Based Perceptual Color Metric. In Color Imaging (IS&T/SID CI), pages 42-47, 2007. Keyword(s): Visualization, Diffusion MRI, Color. [bibtex-key = ci2007]


  3. Zhe Fang, Torsten Moeller, Ghassan Hamarneh, and Anna Celler. Visualization and Exploration of Time-Varying Medical Image Data Sets. In Graphics Interface (GI), pages 281-288, 2007. Keyword(s): Visualization, User Interaction, Spatio-Temporal, Segmentation. [bibtex-key = gi2007]


  4. Ghassan Hamarneh, Aaron Ward, and Richard Frank. Quantification and Visualization of Localized and Intuitive Shape Variability using a Novel Medial-Based Shape Representation. In IEEE International Symposium on Biomedical Imaging (IEEE ISBI), pages 1232-1235, 2007. Keyword(s): Shape Modelling and Analysis, Medial-based Shape Representation. [bibtex-key = isbi2007a]


  5. Ghassan Hamarneh, Aaron Ward, Chris McIntosh, Ben Smith, Lisa Tang, Ahmed Saad, Yonas Weldeselassie, and Omer Ishaq. Medical Image Analysis. In TechMed, Vancouver, May 16, 2007. Keyword(s): Segmentation, Shape Modelling and Analysis, Deformable Models, Deformable Organisms, Artificial Life, Imaging, Software and Tools. [bibtex-key = techmed2007]


  6. Omer Ishaq, Ghassan Hamarneh, Roger Tam, and Anthony Traboulsee. Longitudinal, Regional and Deformation-Specific Corpus Callosum Shape Analysis for Multiple Sclerosis. In IEEE Engineering in Medicine and Biology (IEEE EMBC), pages 2110-2113, 2007. Keyword(s): Shape Modelling and Analysis, Medial-based Shape Representation. [bibtex-key = embc2007]


  7. Chris McIntosh and Ghassan Hamarneh. Is a Single Energy Functional Sufficient? Adaptive Energy Functionals and Automatic Initialization. In Lecture Notes in Computer Science, Medical Image Computing and Computer-Assisted Intervention (MICCAI), volume 4792, pages 503-510, 2007. Keyword(s): Deformable Models, Segmentation, Optimization, Machine Learning. [bibtex-key = miccai2007c]


  8. Chris McIntosh, Ghassan Hamarneh, and Greg Mori. Human Limb Delineation and Joint Position Recovery Using Localized Boundary Models. In IEEE Workshop on Motion and Video Computing (IEEE WMVC), pages 31-38, 2007. Keyword(s): Segmentation, Deformable Models, Deformable Organisms, Tracking. [bibtex-key = wmvc2007]


  9. 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]


  10. 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]


  11. Ahmed Saad, Ben Smith, Ghassan Hamarneh, and Torsten Moeller. Simultaneous Segmentation, Kinetic Parameter Estimation, and Uncertainty Visualization of Dynamic PET Images. In Lecture Notes in Computer Science, Medical Image Computing and Computer-Assisted Intervention (MICCAI), volume 4792, pages 726-733, 2007. Keyword(s): Segmentation, Functional/Molecular/Dynamic Imaging, Uncertainty, Graph based. [bibtex-key = miccai2007b]


  12. Aaron Ward and Ghassan Hamarneh. 3D Surface Parameterization Using Manifold Learning for Medial Shape Representation. In SPIE Medical Imaging, volume 6512-0X, pages 1-8, 2007. Keyword(s): Shape Modelling and Analysis, Medial-based Shape Representation. [bibtex-key = spiemi2007d]


  13. Aaron Ward and Ghassan Hamarneh. Statistical Shape Modeling using MDL Incorporating Shape, Appearance, and Expert Knowledge. In Lecture Notes in Computer Science, Medical Image Computing and Computer-Assisted Intervention (MICCAI), volume 4791, pages 278-285, 2007. Keyword(s): Shape Modelling and Analysis, Registration and Matching. [bibtex-key = miccai2007d]


  14. Aaron Ward, Ghassan Hamarneh, and Mark Schweitzer. Anatomical Shape Analysis: Exploring the Relationship between Shape and Pathology. In CIHR National Research Poster Competition, Canadian Student Health Research Forum (CSHRF), Winnipeg, June 6-7, 2007. Keyword(s): Shape Modelling and Analysis, Machine Learning. [bibtex-key = cshrf2007]


  15. Yonas Weldeselassie and Ghassan Hamarneh. DT-MRI Segmentation Using Graph Cuts. In SPIE Medical Imaging, volume 6512-1K, pages 1-9, 2007. Keyword(s): Segmentation, Diffusion MRI, Graph based. [bibtex-key = spiemi2007b]


  16. Yonas Weldeselassie, Ghassan Hamarneh, and Daniel Weiskopf. Tensor Distance Based Adaptive Seeding Algorithm for DT-MRI Visualization. In SPIE Medical Imaging, volume 65092M, pages 1-9, 2007. Keyword(s): Visualization, Diffusion MRI. [bibtex-key = spiemi2007c]


  17. Oliver van Kaick, Ghassan Hamarneh, Hao (Richard) Zhang, and Paul Wighton. Contour Correspondence via Ant Colony Optimization. In Pacific Graphics (PG), pages 271-280, 2007. Keyword(s): Registration and Matching, Optimization. [bibtex-key = pg2007]


2006
  1. Anna Celler, Andy Rova, and Ghassan Hamarneh. NMQC: A NEMA-compliant software application for gamma camera quality control. In Annual meeting of the Canadian Society of Nuclear Medicine (CSNM), 2006. Keyword(s): Imaging, Software and Tools. [bibtex-key = csnm2006a]


  2. Anna Celler, Lisa Tang, Ghassan Hamarneh, and Philip Cohen. Co-registration of CT-SPECT images for tumor localization and dosimetry. In European Association of Nuclear Medicine Annual Congress (EANM), pages 260, 2006. Keyword(s): Registration and Matching. [bibtex-key = eanm2006]


  3. Vincent Chu and Ghassan Hamarneh. MATLAB-ITK interface for medical image filtering, segmentation, and registration. In SPIE Medical Imaging, volume 61443T, pages 1-8, 2006. Keyword(s): Processing, Segmentation, Registration and Matching, Software and Tools. [bibtex-key = spiemi2006a]


  4. Ghassan Hamarneh and Judith Hradsky. Bilateral Filtering of Diffusion Tensor MR Images. In IEEE International Symposium on Signal Processing and Information Technology (IEEE ISSPIT), pages 508-512, 2006. Keyword(s): Processing, Diffusion MRI. [bibtex-key = isspit2006a]


  5. Ghassan Hamarneh and Judith Hradsky. DTMRI Segmentation using DT-Snakes and DT-Livewire. In IEEE International Symposium on Signal Processing and Information Technology (IEEE ISSPIT), pages 513-518, 2006. Keyword(s): Segmentation, Deformable Models, Diffusion MRI, Graph based. [bibtex-key = isspit2006b]


  6. Omer Ishaq, Ghassan Hamarneh, Roger Tam, and Anthony Traboulsee. Effects of Mid Sagittal Plane Perturbation and Image Interpolation on Corpus Callosum Area Calculation. In IEEE International Symposium on Signal Processing and Information Technology (IEEE ISSPIT), pages 197-202, 2006. Keyword(s): Shape Modelling and Analysis. [bibtex-key = isspit2006c]


  7. Omer Ishaq, Ghassan Hamarneh, Roger Tam, Anthony Traboulsee, and David Li. Effects of mid sagittal plane selection on corpus callosal area. In 22nd Congress of the European Committee for Treatment and Research in Multiple Sclerosis (ECTRMS) (Also appeared in Multiple Sclerosis Journal 12(1):S173, 2006), pages 616, 2006. Keyword(s): Shape Modelling and Analysis. [bibtex-key = ectrms2006]


  8. Chris McIntosh and Ghassan Hamarneh. Genetic algorithm driven statistically deformed models for medical image segmentation. In ACM Workshop on Medical Applications of Genetic and Evolutionary Computation Workshop, in conjunction with the Genetic and Evolutionary Computation Conference (ACM GECCO MedGEC), pages 8 pages, 2006. Keyword(s): Segmentation, Shape Modelling and Analysis, Deformable Models, Artificial Life. [bibtex-key = medgec2006]


  9. Chris McIntosh and Ghassan Hamarneh. I-DO: A Deformable Organisms framework for ITK. In Medical Image Computing and Computer-Assisted Intervention Open Science Workshop (also appears in the Insight Journal) (MICCAI OS), pages 1-14, 2006. Keyword(s): Deformable Organisms, Software and Tools, Artificial Life. [bibtex-key = miccai_os2006]


  10. Chris McIntosh and Ghassan Hamarneh. Spinal Crawlers: Deformable Organisms for Spinal Cord Segmentation and Analysis. In Lecture Notes in Computer Science, Medical Image Computing and Computer-Assisted Intervention (MICCAI), volume 4190, pages 808-815, 2006. Keyword(s): Segmentation, Deformable Models, Deformable Organisms, Artificial Life, Vascular (branching / tubular). [bibtex-key = miccai2006]


  11. Chris McIntosh and Ghassan Hamarneh. Vessel Crawlers: 3D Physically-based Deformable Organisms for Vasculature Segmentation and Analysis. In IEEE Conference on Computer Vision and Pattern Recognition (IEEE CVPR), pages 1084-1091, 2006. Keyword(s): Segmentation, Deformable Models, Deformable Organisms, Artificial Life, Vascular (branching / tubular). [bibtex-key = cvpr2006]


  12. Andy Rova, Anna Celler, and Ghassan Hamarneh. NMQC: A NEMA-compliant software application for gamma camera quality control. In Annual meeting of the Society for Computer Applications in Radiology (SCAR), pages 91-93, 2006. Keyword(s): Imaging, Software and Tools. [bibtex-key = scar2006b]


  13. Andy Rova, Anna Celler, and Ghassan Hamarneh. NMQC: A NEMA-compliant software for gamma camera quality control. In Vancouver Coastal Health Research Institute (VCHRI), 2006. Keyword(s): Imaging, Software and Tools. [bibtex-key = vchri2006a]


  14. Kevin Stevenson, Mark Schweitzer, and Ghassan Hamarneh. Multi-angle deformation analysis of Hoffa's fat pad. In SPIE Medical Imaging, volume 6143-29, pages 1-9, 2006. Keyword(s): Segmentation, Registration and Matching. [bibtex-key = spiemi2006c]


  15. Lisa Tang, Anna Celler, and Ghassan Hamarneh. Co-registration and fusion of CT and SPECT images. In Annual meeting of the Canadian Society of Nuclear Medicine (CSNM), 2006. Keyword(s): Registration and Matching. [bibtex-key = csnm2006b]


  16. Lisa Tang, Ghassan Hamarneh, and Anna Celler. Co-registration and fusion of CT and SPECT images using mutual information. In Vancouver Coastal Health Research Institute (VCHRI), 2006. Keyword(s): Registration and Matching. [bibtex-key = vchri2006b]


  17. Lisa Tang, Ghassan Hamarneh, and Anna Celler. Co-registration of Bone CT and SPECT Images Using Mutual Information. In IEEE International Symposium on Signal Processing and Information Technology (IEEE ISSPIT), pages 116-121, 2006. Keyword(s): Registration and Matching. [bibtex-key = isspit2006d]


  18. Aaron Ward, Ghassan Hamarneh, Reem Ashry, and Mark Schweitzer. 3D Shape Analysis of the Supraspinatus Muscle. In Medical Image Computing and Computer-Assisted Intervention Joint Diseases Workshop (MICCAI JD), pages 96-103, 2006. Keyword(s): Shape Modelling and Analysis, Machine Learning. [bibtex-key = miccai_jd2006b]


  19. Aaron Ward, Ghassan Hamarneh, and Mark Schweitzer. 3D Shape Description of the Bicipital Groove: Correlation to Pathology. In Medical Image Computing and Computer-Assisted Intervention Joint Diseases Workshop (MICCAI JD), pages 80-87, 2006. Keyword(s): Shape Modelling and Analysis, Machine Learning. [bibtex-key = miccai_jd2006a]


  20. Aaron Ward, Mark Schweitzer, and Ghassan Hamarneh. 3D shape description of the bicipital groove of the proximal humerus. In SPIE Medical Imaging, volume 6143-27, pages 1-9, 2006. Keyword(s): Shape Modelling and Analysis. [bibtex-key = spiemi2006b]


  21. Aaron Ward, Mark Schweitzer, and Ghassan Hamarneh. Computational and Visualization Techniques for Understanding the Shape Variations of the Bicipital Groove of the Proximal Humerus. In Annual meeting of the Society for Computer Applications in Radiology (SCAR), pages 47-49, 2006. Keyword(s): Visualization, Shape Modelling and Analysis. [bibtex-key = scar2006a]


2005
  1. Artur Chodorowski, Ulf Mattsson, Morgan Langille, and Ghassan Hamarneh. Color lesion boundary detection using live wire. In SPIE Medical Imaging, volume 5747, pages 1589-1596, 2005. Keyword(s): Segmentation, Deformable Models, Color, Graph based. [bibtex-key = spiemi2005d]


  2. Vincent Chu and Ghassan Hamarneh. MATITK: MATLAB-ITK Interface for Medical Image Processing. In 1st Annual Medical Technology Research Showcase, Vancouver, BC, 2005. Keyword(s): Processing, Segmentation, Registration and Matching, Software and Tools. [bibtex-key = medical_showcase2005a]


  3. Ghassan Hamarneh, Vincent Chu, Marcelo Bordalo-Rodrigues, and Mark Schweitzer. Deformation analysis of Hoffa's fat pad from CT images of knee flexion and extension. In SPIE Medical Imaging, volume 5746, pages 527-534, 2005. Keyword(s): Segmentation, Registration and Matching, Shape Modelling and Analysis. [bibtex-key = spiemi2005b]


  4. Ghassan Hamarneh and Chris McIntosh. Physics-based deformable organisms for medical image analysis. In SPIE Medical Imaging, volume 5747, pages 326-335, 2005. Keyword(s): Segmentation, Shape Modelling and Analysis, Medial-based Shape Representation, Deformable Organisms, Artificial Life. [bibtex-key = spiemi2005a]


  5. Ghassan Hamarneh, Johnson Yang, Chris McIntosh, and Morgan Langille. 3D live-wire-based semi-automatic segmentation of medical images. In SPIE Medical Imaging, volume 5747, pages 1597-1603, 2005. Keyword(s): Segmentation, Deformable Models. [bibtex-key = spiemi2005c]


  6. Xiaoxing Li and Ghassan Hamarneh. Modeling Prior Shape and Appearance Knowledge in Watershed Segmentation. In Canadian Conference on Computer and Robot Vision (CRV), pages 27-33, 2005. Keyword(s): Segmentation, Shape Modelling and Analysis. [bibtex-key = crv2005]


  7. Chris McIntosh and Ghassan Hamarneh. Artificial Life Models for Medical Image Analysis - 2D and 3D ITK-Based Deformable Organisms. In 1st Annual Medical Technology Research Showcase, Vancouver, BC, 2005. Keyword(s): Segmentation, Deformable Organisms, Artificial Life. [bibtex-key = medical_showcase2005c]


  8. Aaron Ward, Mark Schweitzer, and Ghassan Hamarneh. Shape Description of the Bicipital Groove of the Proximal Humerus. In 1st Annual Medical Technology Research Showcase, Vancouver, BC, 2005. Keyword(s): Shape Modelling and Analysis. [bibtex-key = medical_showcase2005b]


2004
  1. Ghassan Hamarneh and Chris McIntosh. Corpus Callosum Segmentation in Magnetic Resonance Images Using Artificial Organisms. In The MSHRF/CIHR Strategic Training Program in Neurobiology and Behaviour. Neuroscience Research Colloquia, Annual Neuroscience Extravaganza, Brain Research Centre, UBC, November 2004. Keyword(s): Segmentation, Deformable Organisms, Artificial Life. [bibtex-key = neuroscix2004]


2003
  1. Josette Chen, Lee Adamson, Leila Baghdadi, Jonathan Bishop, Nick Bock, John Cargill, Lori Davidson, Jun Dazai, Stuart Foster, Ghassan Hamarneh, Natasha Kovacevic, Nir Lifshitz, Brian Nieman, Janet Rossant, John Sled, Yuqing Zhou, and Mark Henkelman. Current Progress of Imaging Screens at the Mouse Imaging Centre. In Integrated Functional Genomics of the Mouse (IFGM), October 2003. Keyword(s): Imaging, Processing, Segmentation, Registration and Matching. [bibtex-key = ifgm2003]


  2. Ghassan Hamarneh, Josette Chen, Nir Lifshitz, and Mark Henkelman. Local volume changes of the corpus callosum from 3D MR images of wildtype and knockout mouse brains. In 11th Scientific Meeting and Exhibition of the International Society for Magnetic Resonance in Medicine (ISMRM), 2003. Keyword(s): Registration and Matching, Shape Modelling and Analysis. [bibtex-key = ismrm2003b]


  3. Ghassan Hamarneh, Josette Chen, Brian Nieman, Jeff Henderson, and Mark Henkelman. Processing, Segmentation, Registration, and Deformation Analysis of 3D MR Images of Mice.. In Lecture Notes in Computer Science, Medical Image Computing and Computer-Assisted Intervention (MICCAI), volume 2879, pages 878-885, 2003. ISBN: 3-540-20464-4. Keyword(s): Processing, Segmentation, Registration and Matching, Deformable Models. [bibtex-key = miccai2003a]


  4. Ghassan Hamarneh, Herve Delingette, and Mark Henkelman. 3D segmentation of mouse organs from MR images using deformable simplex mesh models. In 11th Scientific Meeting and Exhibition of the International Society for Magnetic Resonance in Medicine (ISMRM), 2003. Keyword(s): Segmentation, Deformable Models. [bibtex-key = ismrm2003a]


  5. Ghassan Hamarneh and Tim McInerney. Physics-based shape deformations for medical image analysis. In SPIE Electronic Imaging, volume 5014, pages 354-362, 2003. Keyword(s): Shape Modelling and Analysis, Medial-based Shape Representation, Deformable Models. [bibtex-key = spieei2003]


  6. Mark Henkelman, Josette Chen, John Sled, John Cargill, Ghassan Hamarneh, Natasha Kovacevic, Leila Baghdadi, Stuart Foster, Yuqing Zhou, Jonathan Bishop, Nick Bock, Brian Nieman, Johnathon Walls, Lori Davidson, Jun Dazai, Nir Lifshitz, Colin McKerlie, Lee Adamson, and Janet Rossant. Imaging for Mouse Phenotyping. In 17th International Mouse Genome Conference (IMGC), November 2003. Keyword(s): Imaging. [bibtex-key = imgc2003]


  7. Natasha Kovacevic, Ghassan Hamarneh, and Mark Henkelman. Anatomically Guided Registration of Whole Body Mouse MR Images.. In Lecture Notes in Computer Science, Medical Image Computing and Computer-Assisted Intervention (MICCAI), volume 2879, pages 870-877, 2003. ISBN: 3-540-20464-4. Keyword(s): Registration and Matching. [bibtex-key = miccai2003b]


2002
  1. Ghassan Hamarneh. [Time Varying Shape, Spatio-Temporal Models] Deformable Spatio-Temporal Shape Models. In R Fisher, editor, In CVonline: On-Line Compendium of Computer Vision [Online], 2002. Note: Available: http://www.dai.ed.ac.uk/CVonline/. [2002, January, 22nd]. Keyword(s): Segmentation, Shape Modelling and Analysis, Deformable Models. [bibtex-key = cvonline2002]


  2. Ghassan Hamarneh, Natasha Kovacevic, John Sled, and Mark Henkelman. Deformable Surface Models for Segmenting 3D MR Images of Mice. In Imaging Network Ontario’s 2nd Annual Imaging Symposium (INO), 2002. Keyword(s): Segmentation, Deformable Models. [bibtex-key = ino2002a]


  3. Mark Henkelman, Nick Bock, Josette Chen, Ghassan Hamarneh, Natasha Kovacevic, and Stuart Foster. Parallel MR Imaging for Mouse Phenotyping. In XXth International Conference on Magnetic Resonance in Biological Systems (MRBS), pages 90, 2002. Keyword(s): Imaging. [bibtex-key = icmrbs2002]


  4. Mark Henkelman, Josette Chen, John Cargill, Nick Bock, Brian Nieman, Nir Lifshitz, Stuart Foster, Allison Duckett, John Sled, Jun Dazai, Natasha Kovacevic, Ghassan Hamarneh, Colin McKerlie, Janet Rossant, and Johnathon Walls. An Imaging Centre for Mouse Phenotyping. In 16th International Mouse Genome Conference (IMGC), 2002. Keyword(s): Imaging, Processing, Segmentation, Registration and Matching. [bibtex-key = imgc2002]


  5. Natasha Kovacevic, Ghassan Hamarneh, John Sled, and Mark Henkelman. 3D Registration of MR Mouse Images. In Imaging Network Ontario’s 2nd Annual Imaging Symposium (INO), 2002. Keyword(s): Registration and Matching. [bibtex-key = ino2002b]


2001
  1. 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]


  2. Ghassan Hamarneh and Tomas Gustavsson. Deformable Spatio-Temporal Shape Models: Extending ASM to 2D+Time. In British Machine Vision Conference (BMVC), volume 1, pages 13-22, 2001. Keyword(s): Segmentation, Shape Modelling and Analysis, Deformable Models. [bibtex-key = bmvc2001]


  3. Ghassan Hamarneh and Tim McInerney. Controlled Shape Deformations via Medial Profiles. In Vision Interface (VI), pages 252-258, 2001. Keyword(s): Shape Modelling and Analysis, Medial-based Shape Representation. [bibtex-key = vi2001]


  4. Ghassan Hamarneh, Tim McInerney, and Demetri Terzopoulos. Deformable Organisms for Automatic Medical Image Analysis.. In Lecture Notes in Computer Science, Medical Image Computing and Computer-Assisted Intervention (MICCAI), volume 2208, pages 66-75, 2001. Keyword(s): Segmentation, Deformable Organisms, Artificial Life. [bibtex-key = miccai2001]


2000
  1. Karin Althoff, Ghassan Hamarneh, and Tomas Gustavsson. Tracking Contrast in Echocardiography by a Combined Snake and Optical Flow Technique. In IEEE Computers in Cardiology (IEEE CinC), volume 27, pages 29-32, 2000. Keyword(s): Segmentation, Deformable Models. [bibtex-key = cic2000a]


  2. Ghassan Hamarneh. Image Segmentation with Constrained Snakes. In Swedish Image Analysis Society Newsletter SSABlaskan, number 8, pages 5-6, 2000. Keyword(s): Segmentation, Shape Modelling and Analysis, Deformable Models. [bibtex-key = ssablaskan2000]


  3. Ghassan Hamarneh, Karin Althoff, and Tomas Gustavsson. Snake Deformations Based on Optical Flow Forces for Contrast Agent Tracking in Echocardiography. In Swedish Symposium on Image Analysis (SSIA), pages 45-48, 2000. Keyword(s): Segmentation, Deformable Models. [bibtex-key = ssab2000b]


  4. Ghassan Hamarneh, Artur Chodorowski, and Tomas Gustavsson. Active Contour Models: Application to Oral Lesion Detection in Color Images. In IEEE International Conference on Systems, Man, and Cybernetics (IEEE SMC), volume 4, pages 2458 -2463, 2000. Keyword(s): Segmentation, Deformable Models, Color. [bibtex-key = smc2000a]


  5. Ghassan Hamarneh and Tomas Gustavsson. Combining Snakes and Active Shape Models for Segmenting the Human Left Ventricle in Echocardiographic Images. In IEEE Computers in Cardiology (IEEE CinC), volume 27, pages 115-118, 2000. Keyword(s): Segmentation, Shape Modelling and Analysis, Deformable Models. [bibtex-key = cic2000b]


  6. Ghassan Hamarneh and Tomas Gustavsson. Constraining Contour Deformations Using Statistical a Priori Knowledge of Shape without Requiring Point-to-Point Correspondence. In Swedish Symposium on Image Analysis (SSIA), pages 33-36, 2000. Keyword(s): Segmentation, Shape Modelling and Analysis, Deformable Models. [bibtex-key = ssab2000a]


  7. Ghassan Hamarneh and Tomas Gustavsson. Statistically Constrained Snake Deformations. In IEEE International Conference on Systems, Man, and Cybernetics (IEEE SMC), volume 3, pages 1610-1615, 2000. Keyword(s): Segmentation, Shape Modelling and Analysis, Deformable Models. [bibtex-key = smc2000b]


1999
  1. Ghassan Hamarneh and Tomas Gustavsson. A Method for Modeling and Segmentation of Spatio-Temporal Shapes. In Swedish Symposium on Image Analysis (SSIA), pages 49-52, 1999. Keyword(s): Segmentation, Shape Modelling and Analysis, Deformable Models. [bibtex-key = ssab1999]


1998
  1. 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]


  2. 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]


1997
  1. 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]



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Last modified: Wed Oct 8 14:47:59 2014
Author: hamarneh.


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