A graph-based mathematical morphology reader

This survey paper aims at providing a "literary" anthology of mathematical morphology on graphs. It describes in the English language many ideas stemming from a large number of different papers, hence providing a unified view of an active and diverse field of research

Disconnected Skeleton: Shape at its Absolute Scale

We present a new skeletal representation along with a matching framework to address the deformable shape recognition problem. The disconnectedness arises as a result of excessive regularization that we use to describe a shape at an attainably coarse scale. Our motivation is to rely on the stable properties of the shape instead of inaccurately measured secondary details. The new representation does not suffer from the common instability problems of traditional connected skeletons, and the matching process gives quite successful results on a diverse database of 2D shapes. An important difference of our approach from the conventional use of the skeleton is that we replace the local coordinate frame with a global Euclidean frame supported by additional mechanisms to handle articulations and local boundary deformations. As a result, we can produce descriptions that are sensitive to any combination of changes in scale, position, orientation and articulation, as well as invariant ones.Comment: The work excluding {\S}V and {\S}VI has first appeared in 2005 ICCV: Aslan, C., Tari, S.: An Axis-Based Representation for Recognition. In ICCV(2005) 1339- 1346.; Aslan, C., : Disconnected Skeletons for Shape Recognition. Masters thesis, Department of Computer Engineering, Middle East Technical University, May 200

Graph Spectral Image Processing

Recent advent of graph signal processing (GSP) has spurred intensive studies of signals that live naturally on irregular data kernels described by graphs (e.g., social networks, wireless sensor networks). Though a digital image contains pixels that reside on a regularly sampled 2D grid, if one can design an appropriate underlying graph connecting pixels with weights that reflect the image structure, then one can interpret the image (or image patch) as a signal on a graph, and apply GSP tools for processing and analysis of the signal in graph spectral domain. In this article, we overview recent graph spectral techniques in GSP specifically for image / video processing. The topics covered include image compression, image restoration, image filtering and image segmentation

Inferring Geodesic Cerebrovascular Graphs: Image Processing, Topological Alignment and Biomarkers Extraction

A vectorial representation of the vascular network that embodies quantitative features - location, direction, scale, and bifurcations - has many potential neuro-vascular applications. Patient-specific models support computer-assisted surgical procedures in neurovascular interventions, while analyses on multiple subjects are essential for group-level studies on which clinical prediction and therapeutic inference ultimately depend. This first motivated the development of a variety of methods to segment the cerebrovascular system. Nonetheless, a number of limitations, ranging from data-driven inhomogeneities, the anatomical intra- and inter-subject variability, the lack of exhaustive ground-truth, the need for operator-dependent processing pipelines, and the highly non-linear vascular domain, still make the automatic inference of the cerebrovascular topology an open problem. In this thesis, brain vessels’ topology is inferred by focusing on their connectedness. With a novel framework, the brain vasculature is recovered from 3D angiographies by solving a connectivity-optimised anisotropic level-set over a voxel-wise tensor field representing the orientation of the underlying vasculature. Assuming vessels joining by minimal paths, a connectivity paradigm is formulated to automatically determine the vascular topology as an over-connected geodesic graph. Ultimately, deep-brain vascular structures are extracted with geodesic minimum spanning trees. The inferred topologies are then aligned with similar ones for labelling and propagating information over a non-linear vectorial domain, where the branching pattern of a set of vessels transcends a subject-specific quantized grid. Using a multi-source embedding of a vascular graph, the pairwise registration of topologies is performed with the state-of-the-art graph matching techniques employed in computer vision. Functional biomarkers are determined over the neurovascular graphs with two complementary approaches. Efficient approximations of blood flow and pressure drop account for autoregulation and compensation mechanisms in the whole network in presence of perturbations, using lumped-parameters analog-equivalents from clinical angiographies. Also, a localised NURBS-based parametrisation of bifurcations is introduced to model fluid-solid interactions by means of hemodynamic simulations using an isogeometric analysis framework, where both geometry and solution profile at the interface share the same homogeneous domain. Experimental results on synthetic and clinical angiographies validated the proposed formulations. Perspectives and future works are discussed for the group-wise alignment of cerebrovascular topologies over a population, towards defining cerebrovascular atlases, and for further topological optimisation strategies and risk prediction models for therapeutic inference. Most of the algorithms presented in this work are available as part of the open-source package VTrails

An evaluation of partial differential equations based digital inpainting algorithms

Partial Differential equations (PDEs) have been used to model various phenomena/tasks in different scientific and engineering endeavours. This thesis is devoted to modelling image inpainting by numerical implementations of certain PDEs. The main objectives of image inpainting include reconstructing damaged parts and filling-in regions in which data/colour information are missing. Different automatic and semi-automatic approaches to image inpainting have been developed including PDE-based, texture synthesis-based, exemplar-based, and hybrid approaches. Various challenges remain unresolved in reconstructing large size missing regions and/or missing areas with highly textured surroundings. Our main aim is to address such challenges by developing new advanced schemes with particular focus on using PDEs of different orders to preserve continuity of textural and geometric information in the surrounding of missing regions. We first investigated the problem of partial colour restoration in an image region whose greyscale channel is intact. A PDE-based solution is known that is modelled as minimising total variation of gradients in the different colour channels. We extend the applicability of this model to partial inpainting in other 3-channels colour spaces (such as RGB where information is missing in any of the two colours), simply by exploiting the known linear/affine relationships between different colouring models in the derivation of a modified PDE solution obtained by using the Euler-Lagrange minimisation of the corresponding gradient Total Variation (TV). We also developed two TV models on the relations between greyscale and colour channels using the Laplacian operator and the directional derivatives of gradients. The corresponding Euler-Lagrange minimisation yields two new PDEs of different orders for partial colourisation. We implemented these solutions in both spatial and frequency domains. We measure the success of these models by evaluating known image quality measures in inpainted regions for sufficiently large datasets and scenarios. The results reveal that our schemes compare well with existing algorithms, but inpainting large regions remains a challenge. Secondly, we investigate the Total Inpainting (TI) problem where all colour channels are missing in an image region. Reviewing and implementing existing PDE-based total inpainting methods reveal that high order PDEs, applied to each colour channel separately, perform well but are influenced by the size of the region and the quantity of texture surrounding it. Here we developed a TI scheme that benefits from our partial inpainting approach and apply two PDE methods to recover the missing regions in the image. First, we extract the (Y, Cb, Cr) of the image outside the missing region, apply the above PDE methods for reconstructing the missing regions in the luminance channel (Y), and then use the colourisation method to recover the missing (Cb, Cr) colours in the region. We shall demonstrate that compared to existing TI algorithms, our proposed method (using 2 PDE methods) performs well when tested on large datasets of natural and face images. Furthermore, this helps understanding of the impact of the texture in the surrounding areas on inpainting and opens new research directions. Thirdly, we investigate existing Exemplar-Based Inpainting (EBI) methods that do not use PDEs but simultaneously propagate the texture and structure into the missing region by finding similar patches within the rest of image and copying them into the boundary of the missing region. The order of patch propagation is determined by a priority function, and the similarity is determined by matching criteria. We shall exploit recently emerging Topological Data Analysis (TDA) tools to create innovative EBI schemes, referred to as TEBI. TDA studies shapes of data/objects to quantify image texture in terms of connectivity and closeness properties of certain data landmarks. Such quantifications help determine the appropriate size of patch propagation and will be used to modify the patch propagation priority function using the geometrical properties of curvature of isophotes, and to improve the matching criteria of patches by calculating the correlation coefficients from the spatial, gradient and Laplacian domains. The performance of this TEBI method will be tested by applying it to natural dataset images, resulting in improved inpainting when compared with other EBI methods. Fourthly, the recent hybrid-based inpainting techniques are reviewed and a number of highly performing innovative hybrid techniques that combine the use of high order PDE methods with the TEBI method for the simultaneous rebuilding of the missing texture and structure regions in an image are proposed. Such a hybrid scheme first decomposes the image into texture and structure components, and then the missing regions in these components are recovered by TEBI and PDE based methods respectively. The performance of our hybrid schemes will be compared with two existing hybrid algorithms. Fifthly, we turn our attention to inpainting large missing regions, and develop an innovative inpainting scheme that uses the concept of seam carving to reduce this problem to that of inpainting a smaller size missing region that can be dealt with efficiently using the inpainting schemes developed above. Seam carving resizes images based on content-awareness of the image for both reduction and expansion without affecting those image regions that have rich information. The missing region of the seam-carved version will be recovered by the TEBI method, original image size is restored by adding the removed seams and the missing parts of the added seams are then repaired using a high order PDE inpainting scheme. The benefits of this approach in dealing with large missing regions are demonstrated. The extensive performance testing of the developed inpainting methods shows that these methods significantly outperform existing inpainting methods for such a challenging task. However, the performance is still not acceptable in recovering large missing regions in high texture and structure images, and hence we shall identify remaining challenges to be investigated in the future. We shall also extend our work by investigating recently developed deep learning based image/video colourisation, with the aim of overcoming its limitations and shortcoming. Finally, we should also describe our on-going research into using TDA to detect recently growing serious “malicious” use of inpainting to create Fake images/videos