In this paper, we propose DeepCut, a method to obtain pixelwise object segmentations given an image dataset labelled with bounding box annotations. It extends the approach of the well-known GrabCut method to include machine learning by training a neural network classifier from bounding box annotations. We formulate the problem as an energy minimisation problem over a densely-connected conditional random field and iteratively update the training targets to obtain pixelwise object segmentations. Additionally, we propose variants of the DeepCut method and compare those to a naive approach to CNN training under weak supervision. We test its applicability to solve brain and lung segmentation problems on a challenging fet al magnetic resonance dataset and obtain encouraging results in terms of accuracy.
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@cite_4: The problem of efficient, interactive foreground background segmentation in still images is of great practical importance in image editing. Classical image segmentation tools use either texture (colour) information, e.g. Magic Wand, or edge (contrast) information, e.g. Intelligent Scissors. Recently, an approach based on optimization by graph-cut has been developed which successfully combines both types of information. In this paper we extend the graph-cut approach in three respects. First, we have developed a more powerful, iterative version of the optimisation. Secondly, the power of the iterative algorithm is used to simplify substantially the user interaction needed for a given quality of result. Thirdly, a robust algorithm for "border matting" has been developed to estimate simultaneously the alpha-matte around an object boundary and the colours of foreground pixels. We show that for moderately difficult examples the proposed method outperforms competitive tools.
@cite_9: User-provided object bounding box is a simple and popular interaction paradigm considered by many existing interactive image segmentation frameworks. However, these frameworks tend to exploit the provided bounding box merely to exclude its exterior from consideration and sometimes to initialize the energy minimization. In this paper, we discuss how the bounding box can be further used to impose a powerful topological prior, which prevents the solution from excessive shrinking and ensures that the user-provided box bounds the segmentation in a sufficiently tight way. The prior is expressed using hard constraints incorporated into the global energy minimization framework leading to an NP-hard integer program. We then investigate the possible optimization strategies including linear relaxation as well as a new graph cut algorithm called pinpointing. The latter can be used either as a rounding method for the fractional LP solution, which is provably better than thresholding-based rounding, or as a fast standalone heuristic. We evaluate the proposed algorithms on a publicly available dataset, and demonstrate the practical benefits of the new prior both qualitatively and quantitatively.
@cite_6: Segmentation of medical imagery is a challenging problem due to the complexity of the images, as well as to the absence of models of the anatomy that fully capture the possible deformations in each structure. Brain tissue is a particularly complex structure, and its segmentation is an important step for studies in temporal change detection of morphology, as well as for 3D visualization in surgical planning. In this paper, we present a method for segmentation of brain tissue from magnetic resonance images that is a combination of three existing techniques from the Computer Vision literature: EM segmentation, binary morphology, and active contour models. Each of these techniques has been customized for the problem of brain tissue segmentation in a way that the resultant method is more robust than its components. Finally, we present the results of a parallel implementation of this method on IBM''s supercomputer Power Visualization System for a database of 20 brain scans each with 256x256x124 voxels and validate those against segmentations generated by neuroanatomy experts.
@cite_24: Most state-of-the-art techniques for multi-class image segmentation and labeling use conditional random fields defined over pixels or image regions. While region-level models often feature dense pairwise connectivity, pixel-level models are considerably larger and have only permitted sparse graph structures. In this paper, we consider fully connected CRF models defined on the complete set of pixels in an image. The resulting graphs have billions of edges, making traditional inference algorithms impractical. Our main contribution is a highly efficient approximate inference algorithm for fully connected CRF models in which the pairwise edge potentials are defined by a linear combination of Gaussian kernels. Our experiments demonstrate that dense connectivity at the pixel level substantially improves segmentation and labeling accuracy.
@cite_43: Deep convolutional neural networks (DCNNs) trained on a large number of images with strong pixel-level annotations have recently significantly pushed the state-of-art in semantic image segmentation. We study the more challenging problem of learning DCNNs for semantic image segmentation from either (1) weakly annotated training data such as bounding boxes or image-level labels or (2) a combination of few strongly labeled and many weakly labeled images, sourced from one or multiple datasets. We develop Expectation-Maximization (EM) methods for semantic image segmentation model training under these weakly supervised and semi-supervised settings. Extensive experimental evaluation shows that the proposed techniques can learn models delivering competitive results on the challenging PASCAL VOC 2012 image segmentation benchmark, while requiring significantly less annotation effort. We share source code implementing the proposed system at this https URL
@cite_5: Abstract A fundamental step in the diagnosis of cardiovascular diseases, automatic left ventricle (LV) segmentation in cardiac magnetic resonance images (MRIs) is still acknowledged to be a difficult problem. Most of the existing algorithms require either extensive training or intensive user inputs. This study investigates fast detection of the left ventricle (LV) endo- and epicardium surfaces in cardiac MRI via convex relaxation and distribution matching. The algorithm requires a single subject for training and a very simple user input, which amounts to a single point (mouse click) per target region (cavity or myocardium). It seeks cavity and myocardium regions within each 3D phase by optimizing two functionals, each containing two distribution-matching constraints: (1) a distance-based shape prior and (2) an intensity prior. Based on a global measure of similarity between distributions, the shape prior is intrinsically invariant with respect to translation and rotation. We further introduce a scale variable from which we derive a fixed-point equation (FPE), thereby achieving scale-invariance with only few fast computations. The proposed algorithm relaxes the need for costly pose estimation (or registration) procedures and large training sets, and can tolerate shape deformations, unlike template (or atlas) based priors. Our formulation leads to a challenging problem, which is not directly amenable to convex-optimization techniques. For each functional, we split the problem into a sequence of sub-problems, each of which can be solved exactly and globally via a convex relaxation and the augmented Lagrangian method. Unlike related graph-cut approaches, the proposed convex-relaxation solution can be parallelized to reduce substantially the computational time for 3D domains (or higher), extends directly to high dimensions, and does not have the grid-bias problem. Our parallelized implementation on a graphics processing unit (GPU) demonstrates that the proposed algorithm requires about 3.87 s for a typical cardiac MRI volume, a speed-up of about five times compared to a standard implementation. We report a performance evaluation over 400 volumes acquired from 20 subjects, which shows that the obtained 3D surfaces correlate with independent manual delineations. We further demonstrate experimentally that (1) the performance of the algorithm is not significantly affected by the choice of the training subject and (2) the shape description we use does not change significantly from one subject to another. These results support the fact that a single subject is sufficient for training the proposed algorithm.
@cite_20: Figure-ground segmentation from bounding box input, provided either automatically or manually, has been extremely popular in the last decade and influenced various applications. A lot of research has focused on high-quality segmentation, using complex formulations which often lead to slow techniques, and often hamper practical usage. In this paper we demonstrate a very fast segmentation technique which still achieves very high quality results. We propose to replace the time consuming iterative refinement of global colour models in traditional GrabCut formulation by a densely connected crf. To motivate this decision, we show that a dense crf implicitly models unnormalized global colour models for foreground and background. Such relationship provides insightful analysis to bridge between dense crf and GrabCut functional. We extensively evaluate our algorithm using two famous benchmarks. Our experimental results demonstrated that the proposed algorithm achieves an order of magnitude 10× speed-up with respect to the closest competitor, and at the same time achieves a considerably higher accuracy.
@cite_17: It is of great interest in image-guided prostate interventions and diagnosis of prostate cancer to accurately and efficiently delineate the boundaries of prostate, especially its two clinically meaningful sub-regions zones of the central gland CZ and the peripheral zone PZ, in the given magnetic resonance MR images. We propose a novel coupled level-sets contours evolution approach to simultaneously locating the prostate region and its two sub-regions, which properly introduces the recently developed convex relaxation technique to jointly evolve two coupled level-sets in a global optimization manner. Especially, in contrast to the classical level-set methods, we demonstrate that the two coupled level-sets can be simultaneously moved to their globally optimal positions at each discrete time-frame while preserving the spatial inter-surface consistency; we study the resulting complicated combinatorial optimization problem at each discrete time evolution by means of convex relaxation and show its global and exact optimality, for which we introduce the novel coupled continuous max-flow model and demonstrate its duality to the investigated convex relaxed optimization problem with the region constraint. The proposed coupled continuous max-flow model naturally leads to a new and efficient algorithm, which enjoys great advantages in numerics and can be readily implemented on GPUs. Experiments over 10 T2-weighted 3D prostate MRIs, by inter- and intra-operator variability, demonstrate the promising performance of the proposed approach.
An iterative optimisation of such energy functionals allows to address more complex problems, such as the pixelwise segmentation from bounding box annotations. The popular GrabCut method @cite_4 iteratively updates parameters of a Gaussian mixture model (GMM) and optimises the resulting energy with a graph cut. Lempitsky @cite_9 extended this method by adding a topological prior to prevent excessive shrinking of the region and @cite_20 improved upon its performance by employing a fast fully connected Conditional-Random Field (CRF) @cite_24 . Similar approaches include the time-implicit propagation of levelsets via continuous max-flow @cite_17 @cite_14 , iterative graph cuts @cite_5 and the use of the expectation-maximisation (EM) algorithm @cite_38 @cite_6 @cite_43 .