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Sergio Escalera, Ana Puig, Oscar Amoros, & Maria Salamo. (2011). Intelligent GPGPU Classification in Volume Visualization: a framework based on Error-Correcting Output Codes. CGF - Computer Graphics Forum, 30(7), 2107–2115.
Abstract: IF JCR 1.455 2010 25/99
In volume visualization, the definition of the regions of interest is inherently an iterative trial-and-error process finding out the best parameters to classify and render the final image. Generally, the user requires a lot of expertise to analyze and edit these parameters through multi-dimensional transfer functions. In this paper, we present a framework of intelligent methods to label on-demand multiple regions of interest. These methods can be split into a two-level GPU-based labelling algorithm that computes in time of rendering a set of labelled structures using the Machine Learning Error-Correcting Output Codes (ECOC) framework. In a pre-processing step, ECOC trains a set of Adaboost binary classifiers from a reduced pre-labelled data set. Then, at the testing stage, each classifier is independently applied on the features of a set of unlabelled samples and combined to perform multi-class labelling. We also propose an alternative representation of these classifiers that allows to highly parallelize the testing stage. To exploit that parallelism we implemented the testing stage in GPU-OpenCL. The empirical results on different data sets for several volume structures shows high computational performance and classification accuracy.
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Danna Xue, Javier Vazquez, Luis Herranz, Yang Zhang, & Michael S Brown. (2023). Integrating High-Level Features for Consistent Palette-based Multi-image Recoloring. CGF - Computer Graphics Forum, .
Abstract: Achieving visually consistent colors across multiple images is important when images are used in photo albums, websites, and brochures. Unfortunately, only a handful of methods address multi-image color consistency compared to one-to-one color transfer techniques. Furthermore, existing methods do not incorporate high-level features that can assist graphic designers in their work. To address these limitations, we introduce a framework that builds upon a previous palette-based color consistency method and incorporates three high-level features: white balance, saliency, and color naming. We show how these features overcome the limitations of the prior multi-consistency workflow and showcase the user-friendly nature of our framework.
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Tadashi Araki, Nobutaka Ikeda, Nilanjan Dey, Sayan Chakraborty, Luca Saba, Dinesh Kumar, et al. (2015). A comparative approach of four different image registration techniques for quantitative assessment of coronary artery calcium lesions using intravascular ultrasound. CMPB - Computer Methods and Programs in Biomedicine, 118(2), 158–172.
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Sumit K. Banchhor, Tadashi Araki, Narendra D. Londhe, Nobutaka Ikeda, Petia Radeva, Ayman El-Baz, et al. (2016). Five multiresolution-based calcium volume measurement techniques from coronary IVUS videos: A comparative approach. CMPB - Computer Methods and Programs in Biomedicine, 134, 237–258.
Abstract: BACKGROUND AND OBJECTIVE:
Fast intravascular ultrasound (IVUS) video processing is required for calcium volume computation during the planning phase of percutaneous coronary interventional (PCI) procedures. Nonlinear multiresolution techniques are generally applied to improve the processing time by down-sampling the video frames.
METHODS:
This paper presents four different segmentation methods for calcium volume measurement, namely Threshold-based, Fuzzy c-Means (FCM), K-means, and Hidden Markov Random Field (HMRF) embedded with five different kinds of multiresolution techniques (bilinear, bicubic, wavelet, Lanczos, and Gaussian pyramid). This leads to 20 different kinds of combinations. IVUS image data sets consisting of 38,760 IVUS frames taken from 19 patients were collected using 40 MHz IVUS catheter (Atlantis® SR Pro, Boston Scientific®, pullback speed of 0.5 mm/sec.). The performance of these 20 systems is compared with and without multiresolution using the following metrics: (a) computational time; (b) calcium volume; (c) image quality degradation ratio; and (d) quality assessment ratio.
RESULTS:
Among the four segmentation methods embedded with five kinds of multiresolution techniques, FCM segmentation combined with wavelet-based multiresolution gave the best performance. FCM and wavelet experienced the highest percentage mean improvement in computational time of 77.15% and 74.07%, respectively. Wavelet interpolation experiences the highest mean precision-of-merit (PoM) of 94.06 ± 3.64% and 81.34 ± 16.29% as compared to other multiresolution techniques for volume level and frame level respectively. Wavelet multiresolution technique also experiences the highest Jaccard Index and Dice Similarity of 0.7 and 0.8, respectively. Multiresolution is a nonlinear operation which introduces bias and thus degrades the image. The proposed system also provides a bias correction approach to enrich the system, giving a better mean calcium volume similarity for all the multiresolution-based segmentation methods. After including the bias correction, bicubic interpolation gives the largest increase in mean calcium volume similarity of 4.13% compared to the rest of the multiresolution techniques. The system is automated and can be adapted in clinical settings.
CONCLUSIONS:
We demonstrated the time improvement in calcium volume computation without compromising the quality of IVUS image. Among the 20 different combinations of multiresolution with calcium volume segmentation methods, the FCM embedded with wavelet-based multiresolution gave the best performance.
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Giuseppe Pezzano, Vicent Ribas Ripoll, & Petia Radeva. (2021). CoLe-CNN: Context-learning convolutional neural network with adaptive loss function for lung nodule segmentation. CMPB - Computer Methods and Programs in Biomedicine, 198, 105792.
Abstract: Background and objective:An accurate segmentation of lung nodules in computed tomography images is a crucial step for the physical characterization of the tumour. Being often completely manually accomplished, nodule segmentation turns to be a tedious and time-consuming procedure and this represents a high obstacle in clinical practice. In this paper, we propose a novel Convolutional Neural Network for nodule segmentation that combines a light and efficient architecture with innovative loss function and segmentation strategy. Methods:In contrast to most of the standard end-to-end architectures for nodule segmentation, our network learns the context of the nodules by producing two masks representing all the background and secondary-important elements in the Computed Tomography scan. The nodule is detected by subtracting the context from the original scan image. Additionally, we introduce an asymmetric loss function that automatically compensates for potential errors in the nodule annotations. We trained and tested our Neural Network on the public LIDC-IDRI database, compared it with the state of the art and run a pseudo-Turing test between four radiologists and the network. Results:The results proved that the behaviour of the algorithm is very near to the human performance and its segmentation masks are almost indistinguishable from the ones made by the radiologists. Our method clearly outperforms the state of the art on CT nodule segmentation in terms of F1 score and IoU of and respectively. Conclusions: The main structure of the network ensures all the properties of the UNet architecture, while the Multi Convolutional Layers give a more accurate pattern recognition. The newly adopted solutions also increase the details on the border of the nodule, even under the noisiest conditions. This method can be applied now for single CT slice nodule segmentation and it represents a starting point for the future development of a fully automatic 3D segmentation software.
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Juan Borrego-Carazo, Carles Sanchez, David Castells, Jordi Carrabina, & Debora Gil. (2023). BronchoPose: an analysis of data and model configuration for vision-based bronchoscopy pose estimation. CMPB - Computer Methods and Programs in Biomedicine, 228, 107241.
Abstract: Vision-based bronchoscopy (VB) models require the registration of the virtual lung model with the frames from the video bronchoscopy to provide effective guidance during the biopsy. The registration can be achieved by either tracking the position and orientation of the bronchoscopy camera or by calibrating its deviation from the pose (position and orientation) simulated in the virtual lung model. Recent advances in neural networks and temporal image processing have provided new opportunities for guided bronchoscopy. However, such progress has been hindered by the lack of comparative experimental conditions.
In the present paper, we share a novel synthetic dataset allowing for a fair comparison of methods. Moreover, this paper investigates several neural network architectures for the learning of temporal information at different levels of subject personalization. In order to improve orientation measurement, we also present a standardized comparison framework and a novel metric for camera orientation learning. Results on the dataset show that the proposed metric and architectures, as well as the standardized conditions, provide notable improvements to current state-of-the-art camera pose estimation in video bronchoscopy.
Keywords: Videobronchoscopy guiding; Deep learning; Architecture optimization; Datasets; Standardized evaluation framework; Pose estimation
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C. Butakoff, Simone Balocco, F.M. Sukno, C. Hoogendoorn, C. Tobon-Gomez, G. Avegliano, et al. (2016). Left-ventricular Epi- and Endocardium Extraction from 3D Ultrasound Images Using an Automatically Constructed 3D ASM. CMBBE - Computer Methods in Biomechanics and Biomedical Engineering: Imaging and Visualization, 4(5), 265–280.
Abstract: In this paper, we propose an automatic method for constructing an active shape model (ASM) to segment the complete cardiac left ventricle in 3D ultrasound (3DUS) images, which avoids costly manual landmarking. The automatic construction of the ASM has already been addressed in the literature; however, the direct application of these methods to 3DUS is hampered by a high level of noise and artefacts. Therefore, we propose to construct the ASM by fusing the multidetector computed tomography data, to learn the shape, with the artificially generated 3DUS, in order to learn the neighbourhood of the boundaries. Our artificial images were generated by two approaches: a faster one that does not take into account the geometry of the transducer, and a more comprehensive one, implemented in Field II toolbox. The segmentation accuracy of our ASM was evaluated on 20 patients with left-ventricular asynchrony, demonstrating plausibility of the approach.
Keywords: ASM; cardiac segmentation; statistical model; shape model; 3D ultrasound; cardiac segmentation
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Jean-Pascal Jacob, Mariella Dimiccoli, & Lionel Moisan. (2016). Active skeleton for bacteria modeling. CMBBE - Computer Methods in Biomechanics and Biomedical Engineering: Imaging and Visualization, 5(4), 274–286.
Abstract: The investigation of spatio-temporal dynamics of bacterial cells and their molecular components requires automated image analysis tools to track cell shape properties and molecular component locations inside the cells. In the study of bacteria aging, the molecular components of interest are protein aggregates accumulated near bacteria boundaries. This particular location makes very ambiguous the correspondence between aggregates and cells, since computing accurately bacteria boundaries in phase-contrast time-lapse imaging is a challenging task. This paper proposes an active skeleton formulation for bacteria modeling which provides several advantages: an easy computation of shape properties (perimeter, length, thickness, orientation), an improved boundary accuracy in noisy images, and a natural bacteria-centered coordinate system that permits the intrinsic location of molecular components inside the cell. Starting from an initial skeleton estimate, the medial axis of the bacterium is obtained by minimizing an energy function which incorporates bacteria shape constraints. Experimental results on biological images and comparative evaluation of the performances validate the proposed approach for modeling cigar-shaped bacteria like Escherichia coli. The Image-J plugin of the proposed method can be found online at this http URL
Keywords: Bacteria modelling; medial axis; active contours; active skeleton; shape contraints
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Jean-Pascal Jacob, Mariella Dimiccoli, & L. Moisan. (2017). Active skeleton for bacteria modelling. CMBBE - Computer Methods in Biomechanics and Biomedical Engineering: Imaging and Visualization, 5(4), 274–286.
Abstract: The investigation of spatio-temporal dynamics of bacterial cells and their molecular components requires automated image analysis tools to track cell shape properties and molecular component locations inside the cells. In the study of bacteria aging, the molecular components of interest are protein aggregates accumulated near bacteria boundaries. This particular location makes very ambiguous the correspondence between aggregates and cells, since computing accurately bacteria boundaries in phase-contrast time-lapse imaging is a challenging task. This paper proposes an active skeleton formulation for bacteria modelling which provides several advantages: an easy computation of shape properties (perimeter, length, thickness and orientation), an improved boundary accuracy in noisy images and a natural bacteria-centred coordinate system that permits the intrinsic location of molecular components inside the cell. Starting from an initial skeleton estimate, the medial axis of the bacterium is obtained by minimising an energy function which incorporates bacteria shape constraints. Experimental results on biological images and comparative evaluation of the performances validate the proposed approach for modelling cigar-shaped bacteria like Escherichia coli. The Image-J plugin of the proposed method can be found online at http://fluobactracker.inrialpes.fr.
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David Geronimo, Angel Sappa, Daniel Ponsa, & Antonio Lopez. (2010). 2D-3D based on-board pedestrian detection system. CVIU - Computer Vision and Image Understanding, 114(5), 583–595.
Abstract: During the next decade, on-board pedestrian detection systems will play a key role in the challenge of increasing traffic safety. The main target of these systems, to detect pedestrians in urban scenarios, implies overcoming difficulties like processing outdoor scenes from a mobile platform and searching for aspect-changing objects in cluttered environments. This makes such systems combine techniques in the state-of-the-art Computer Vision. In this paper we present a three module system based on both 2D and 3D cues. The first module uses 3D information to estimate the road plane parameters and thus select a coherent set of regions of interest (ROIs) to be further analyzed. The second module uses Real AdaBoost and a combined set of Haar wavelets and edge orientation histograms to classify the incoming ROIs as pedestrian or non-pedestrian. The final module loops again with the 3D cue in order to verify the classified ROIs and with the 2D in order to refine the final results. According to the results, the integration of the proposed techniques gives rise to a promising system.
Keywords: Pedestrian detection; Advanced Driver Assistance Systems; Horizon line; Haar wavelets; Edge orientation histograms
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Debora Gil, & Petia Radeva. (2005). Extending anisotropic operators to recover smooth shapes. Computer Vision and Image Understanding, 99(1), 110–125.
Abstract: Anisotropic differential operators are widely used in image enhancement processes. Recently, their property of smoothly extending functions to the whole image domain has begun to be exploited. Strong ellipticity of differential operators is a requirement that ensures existence of a unique solution. This condition is too restrictive for operators designed to extend image level sets: their own functionality implies that they should restrict to some vector field. The diffusion tensor that defines the diffusion operator links anisotropic processes with Riemmanian manifolds. In this context, degeneracy implies restricting diffusion to the varieties generated by the vector fields of positive eigenvalues, provided that an integrability condition is satisfied. We will use that any smooth vector field fulfills this integrability requirement to design line connection algorithms for contour completion. As application we present a segmenting strategy that assures convergent snakes whatever the geometry of the object to be modelled is.
Keywords: Contour completion; Functional extension; Differential operators; Riemmanian manifolds; Snake segmentation
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Bhaskar Chakraborty, Michael Holte, Thomas B. Moeslund, & Jordi Gonzalez. (2012). Selective Spatio-Temporal Interest Points. CVIU - Computer Vision and Image Understanding, 116(3), 396–410.
Abstract: Recent progress in the field of human action recognition points towards the use of Spatio-TemporalInterestPoints (STIPs) for local descriptor-based recognition strategies. In this paper, we present a novel approach for robust and selective STIP detection, by applying surround suppression combined with local and temporal constraints. This new method is significantly different from existing STIP detection techniques and improves the performance by detecting more repeatable, stable and distinctive STIPs for human actors, while suppressing unwanted background STIPs. For action representation we use a bag-of-video words (BoV) model of local N-jet features to build a vocabulary of visual-words. To this end, we introduce a novel vocabulary building strategy by combining spatial pyramid and vocabulary compression techniques, resulting in improved performance and efficiency. Action class specific Support Vector Machine (SVM) classifiers are trained for categorization of human actions. A comprehensive set of experiments on popular benchmark datasets (KTH and Weizmann), more challenging datasets of complex scenes with background clutter and camera motion (CVC and CMU), movie and YouTube video clips (Hollywood 2 and YouTube), and complex scenes with multiple actors (MSR I and Multi-KTH), validates our approach and show state-of-the-art performance. Due to the unavailability of ground truth action annotation data for the Multi-KTH dataset, we introduce an actor specific spatio-temporal clustering of STIPs to address the problem of automatic action annotation of multiple simultaneous actors. Additionally, we perform cross-data action recognition by training on source datasets (KTH and Weizmann) and testing on completely different and more challenging target datasets (CVC, CMU, MSR I and Multi-KTH). This documents the robustness of our proposed approach in the realistic scenario, using separate training and test datasets, which in general has been a shortcoming in the performance evaluation of human action recognition techniques.
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Susana Alvarez, Anna Salvatella, Maria Vanrell, & Xavier Otazu. (2012). Low-dimensional and Comprehensive Color Texture Description. CVIU - Computer Vision and Image Understanding, 116(I), 54–67.
Abstract: Image retrieval can be dealt by combining standard descriptors, such as those of MPEG-7, which are defined independently for each visual cue (e.g. SCD or CLD for Color, HTD for texture or EHD for edges).
A common problem is to combine similarities coming from descriptors representing different concepts in different spaces. In this paper we propose a color texture description that bypasses this problem from its inherent definition. It is based on a low dimensional space with 6 perceptual axes. Texture is described in a 3D space derived from a direct implementation of the original Julesz’s Texton theory and color is described in a 3D perceptual space. This early fusion through the blob concept in these two bounded spaces avoids the problem and allows us to derive a sparse color-texture descriptor that achieves similar performance compared to MPEG-7 in image retrieval. Moreover, our descriptor presents comprehensive qualities since it can also be applied either in segmentation or browsing: (a) a dense image representation is defined from the descriptor showing a reasonable performance in locating texture patterns included in complex images; and (b) a vocabulary of basic terms is derived to build an intermediate level descriptor in natural language improving browsing by bridging semantic gap
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Miquel Ferrer, Dimosthenis Karatzas, Ernest Valveny, I. Bardaji, & Horst Bunke. (2011). A Generic Framework for Median Graph Computation based on a Recursive Embedding Approach. CVIU - Computer Vision and Image Understanding, 115(7), 919–928.
Abstract: The median graph has been shown to be a good choice to obtain a represen- tative of a set of graphs. However, its computation is a complex problem. Recently, graph embedding into vector spaces has been proposed to obtain approximations of the median graph. The problem with such an approach is how to go from a point in the vector space back to a graph in the graph space. The main contribution of this paper is the generalization of this previ- ous method, proposing a generic recursive procedure that permits to recover the graph corresponding to a point in the vector space, introducing only the amount of approximation inherent to the use of graph matching algorithms. In order to evaluate the proposed method, we compare it with the set me- dian and with the other state-of-the-art embedding-based methods for the median graph computation. The experiments are carried out using four dif- ferent databases (one semi-artificial and three containing real-world data). Results show that with the proposed approach we can obtain better medi- ans, in terms of the sum of distances to the training graphs, than with the previous existing methods.
Keywords: Median Graph, Graph Embedding, Graph Matching, Structural Pattern Recognition
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Jordi Gonzalez, Thomas B. Moeslund, & Liang Wang. (2012). Semantic Understanding of Human Behaviors in Image Sequences: From video-surveillance to video-hermeneutics. CVIU - Computer Vision and Image Understanding, 116(3), 305–306.
Abstract: Purpose: Atheromatic plaque progression is affected, among others phenomena, by biomechanical, biochemical, and physiological factors. In this paper, the authors introduce a novel framework able to provide both morphological (vessel radius, plaque thickness, and type) and biomechanical (wall shear stress and Von Mises stress) indices of coronary arteries.Methods: First, the approach reconstructs the three-dimensional morphology of the vessel from intravascular ultrasound (IVUS) and Angiographic sequences, requiring minimal user interaction. Then, a computational pipeline allows to automatically assess fluid-dynamic and mechanical indices. Ten coronary arteries are analyzed illustrating the capabilities of the tool and confirming previous technical and clinical observations.Results: The relations between the arterial indices obtained by IVUS measurement and simulations have been quantitatively analyzed along the whole surface of the artery, extending the analysis of the coronary arteries shown in previous state of the art studies. Additionally, for the first time in the literature, the framework allows the computation of the membrane stresses using a simplified mechanical model of the arterial wall.Conclusions: Circumferentially (within a given frame), statistical analysis shows an inverse relation between the wall shear stress and the plaque thickness. At the global level (comparing a frame within the entire vessel), it is observed that heavy plaque accumulations are in general calcified and are located in the areas of the vessel having high wall shear stress. Finally, in their experiments the inverse proportionality between fluid and structural stresses is observed.
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