Unsupervised Object Discovery and Tracking in Video Collections

This paper addresses the problem of automatically localizing dominant objects as spatio-temporal tubes in a noisy collection of videos with minimal or even no supervision. We formulate the problem as a combination of two complementary processes: discovery and tracking. The first one establishes correspondences between prominent regions across videos, and the second one associates successive similar object regions within the same video. Interestingly, our algorithm also discovers the implicit topology of frames associated with instances of the same object class across different videos, a role normally left to supervisory information in the form of class labels in conventional image and video understanding methods. Indeed, as demonstrated by our experiments, our method can handle video collections featuring multiple object classes, and substantially outperforms the state of the art in colocalization, even though it tackles a broader problem with much less supervision

Weakly supervised segment annotation via expectation kernel density estimation

Since the labelling for the positive images/videos is ambiguous in weakly supervised segment annotation, negative mining based methods that only use the intra-class information emerge. In these methods, negative instances are utilized to penalize unknown instances to rank their likelihood of being an object, which can be considered as a voting in terms of similarity. However, these methods 1) ignore the information contained in positive bags, 2) only rank the likelihood but cannot generate an explicit decision function. In this paper, we propose a voting scheme involving not only the definite negative instances but also the ambiguous positive instances to make use of the extra useful information in the weakly labelled positive bags. In the scheme, each instance votes for its label with a magnitude arising from the similarity, and the ambiguous positive instances are assigned soft labels that are iteratively updated during the voting. It overcomes the limitations of voting using only the negative bags. We also propose an expectation kernel density estimation (eKDE) algorithm to gain further insight into the voting mechanism. Experimental results demonstrate the superiority of our scheme beyond the baselines.Comment: 9 pages, 2 figure

Keypoint Transfer for Fast Whole-Body Segmentation

We introduce an approach for image segmentation based on sparse correspondences between keypoints in testing and training images. Keypoints represent automatically identified distinctive image locations, where each keypoint correspondence suggests a transformation between images. We use these correspondences to transfer label maps of entire organs from the training images to the test image. The keypoint transfer algorithm includes three steps: (i) keypoint matching, (ii) voting-based keypoint labeling, and (iii) keypoint-based probabilistic transfer of organ segmentations. We report segmentation results for abdominal organs in whole-body CT and MRI, as well as in contrast-enhanced CT and MRI. Our method offers a speed-up of about three orders of magnitude in comparison to common multi-atlas segmentation, while achieving an accuracy that compares favorably. Moreover, keypoint transfer does not require the registration to an atlas or a training phase. Finally, the method allows for the segmentation of scans with highly variable field-of-view.Comment: Accepted for publication at IEEE Transactions on Medical Imagin

Multimodal Three Dimensional Scene Reconstruction, The Gaussian Fields Framework

The focus of this research is on building 3D representations of real world scenes and objects using different imaging sensors. Primarily range acquisition devices (such as laser scanners and stereo systems) that allow the recovery of 3D geometry, and multi-spectral image sequences including visual and thermal IR images that provide additional scene characteristics. The crucial technical challenge that we addressed is the automatic point-sets registration task. In this context our main contribution is the development of an optimization-based method at the core of which lies a unified criterion that solves simultaneously for the dense point correspondence and transformation recovery problems. The new criterion has a straightforward expression in terms of the datasets and the alignment parameters and was used primarily for 3D rigid registration of point-sets. However it proved also useful for feature-based multimodal image alignment. We derived our method from simple Boolean matching principles by approximation and relaxation. One of the main advantages of the proposed approach, as compared to the widely used class of Iterative Closest Point (ICP) algorithms, is convexity in the neighborhood of the registration parameters and continuous differentiability, allowing for the use of standard gradient-based optimization techniques. Physically the criterion is interpreted in terms of a Gaussian Force Field exerted by one point-set on the other. Such formulation proved useful for controlling and increasing the region of convergence, and hence allowing for more autonomy in correspondence tasks. Furthermore, the criterion can be computed with linear complexity using recently developed Fast Gauss Transform numerical techniques. In addition, we also introduced a new local feature descriptor that was derived from visual saliency principles and which enhanced significantly the performance of the registration algorithm. The resulting technique was subjected to a thorough experimental analysis that highlighted its strength and showed its limitations. Our current applications are in the field of 3D modeling for inspection, surveillance, and biometrics. However, since this matching framework can be applied to any type of data, that can be represented as N-dimensional point-sets, the scope of the method is shown to reach many more pattern analysis applications

Spatiotemporal visual analysis of human actions

In this dissertation we propose four methods for the recognition of human activities. In all four of them, the representation of the activities is based on spatiotemporal features that are automatically detected at areas where there is a significant amount of independent motion, that is, motion that is due to ongoing activities in the scene. We propose the use of spatiotemporal salient points as features throughout this dissertation. The algorithms presented, however, can be used with any kind of features, as long as the latter are well localized and have a well-defined area of support in space and time. We introduce the utilized spatiotemporal salient points in the first method presented in this dissertation. By extending previous work on spatial saliency, we measure the variations in the information content of pixel neighborhoods both in space and time, and detect the points at the locations and scales for which this information content is locally maximized. In this way, an activity is represented as a collection of spatiotemporal salient points. We propose an iterative linear space-time warping technique in order to align the representations in space and time and propose to use Relevance Vector Machines (RVM) in order to classify each example into an action category. In the second method proposed in this dissertation we propose to enhance the acquired representations of the first method. More specifically, we propose to track each detected point in time, and create representations based on sets of trajectories, where each trajectory expresses how the information engulfed by each salient point evolves over time. In order to deal with imperfect localization of the detected points, we augment the observation model of the tracker with background information, acquired using a fully automatic background estimation algorithm. In this way, the tracker favors solutions that contain a large number of foreground pixels. In addition, we perform experiments where the tracked templates are localized on specific parts of the body, like the hands and the head, and we further augment the tracker’s observation model using a human skin color model. Finally, we use a variant of the Longest Common Subsequence algorithm (LCSS) in order to acquire a similarity measure between the resulting trajectory representations, and RVMs for classification. In the third method that we propose, we assume that neighboring salient points follow a similar motion. This is in contrast to the previous method, where each salient point was tracked independently of its neighbors. More specifically, we propose to extract a novel set of visual descriptors that are based on geometrical properties of three-dimensional piece-wise polynomials. The latter are fitted on the spatiotemporal locations of salient points that fall within local spatiotemporal neighborhoods, and are assumed to follow a similar motion. The extracted descriptors are invariant in translation and scaling in space-time. Coupling the neighborhood dimensions to the scale at which the corresponding spatiotemporal salient points are detected ensures the latter. The descriptors that are extracted across the whole dataset are subsequently clustered in order to create a codebook, which is used in order to represent the overall motion of the subjects within small temporal windows.Finally,we use boosting in order to select the most discriminative of these windows for each class, and RVMs for classification. The fourth and last method addresses the joint problem of localization and recognition of human activities depicted in unsegmented image sequences. Its main contribution is the use of an implicit representation of the spatiotemporal shape of the activity, which relies on the spatiotemporal localization of characteristic ensembles of spatiotemporal features. The latter are localized around automatically detected salient points. Evidence for the spatiotemporal localization of the activity is accumulated in a probabilistic spatiotemporal voting scheme. During training, we use boosting in order to create codebooks of characteristic feature ensembles for each class. Subsequently, we construct class-specific spatiotemporal models, which encode where in space and time each codeword ensemble appears in the training set. During testing, each activated codeword ensemble casts probabilistic votes concerning the spatiotemporal localization of the activity, according to the information stored during training. We use a Mean Shift Mode estimation algorithm in order to extract the most probable hypotheses from each resulting voting space. Each hypothesis corresponds to a spatiotemporal volume which potentially engulfs the activity, and is verified by performing action category classification with an RVM classifier

ACME: Automated Cell Morphology Extractor for Comprehensive Reconstruction of Cell Membranes

The quantification of cell shape, cell migration, and cell rearrangements is important for addressing classical questions in developmental biology such as patterning and tissue morphogenesis. Time-lapse microscopic imaging of transgenic embryos expressing fluorescent reporters is the method of choice for tracking morphogenetic changes and establishing cell lineages and fate maps in vivo. However, the manual steps involved in curating thousands of putative cell segmentations have been a major bottleneck in the application of these technologies especially for cell membranes. Segmentation of cell membranes while more difficult than nuclear segmentation is necessary for quantifying the relations between changes in cell morphology and morphogenesis. We present a novel and fully automated method to first reconstruct membrane signals and then segment out cells from 3D membrane images even in dense tissues. The approach has three stages: 1) detection of local membrane planes, 2) voting to fill structural gaps, and 3) region segmentation. We demonstrate the superior performance of the algorithms quantitatively on time-lapse confocal and two-photon images of zebrafish neuroectoderm and paraxial mesoderm by comparing its results with those derived from human inspection. We also compared with synthetic microscopic images generated by simulating the process of imaging with fluorescent reporters under varying conditions of noise. Both the over-segmentation and under-segmentation percentages of our method are around 5%. The volume overlap of individual cells, compared to expert manual segmentation, is consistently over 84%. By using our software (ACME) to study somite formation, we were able to segment touching cells with high accuracy and reliably quantify changes in morphogenetic parameters such as cell shape and size, and the arrangement of epithelial and mesenchymal cells. Our software has been developed and tested on Windows, Mac, and Linux platforms and is available publicly under an open source BSD license (https://github.com/krm15/ACME)