Restoration of the cantilever bowing distortion in Atomic Force Microscopy

Due to the mechanics of the Atomic Force Microscope (AFM), there is a curvature distortion (bowing effect) present in the acquired images. At present, flattening such images requires human intervention to manually segment object data from the background, which is time consuming and highly inaccurate. In this paper, an automated algorithm to flatten lines from AFM images is presented. The proposed method classifies the data into objects and background, and fits convex lines in an iterative fashion. Results on real images from DNA wrapped carbon nanotubes (DNACNTs) and synthetic experiments are presented, demonstrating the effectiveness of the proposed algorithm in increasing the resolution of the surface topography. In addition a link between the flattening problem and MRI inhomogeneity (shading) is given and the proposed method is compared to an entropy based MRI inhomogeniety correction method

The Advantage of Evidential Attributes in Social Networks

Nowadays, there are many approaches designed for the task of detecting communities in social networks. Among them, some methods only consider the topological graph structure, while others take use of both the graph structure and the node attributes. In real-world networks, there are many uncertain and noisy attributes in the graph. In this paper, we will present how we detect communities in graphs with uncertain attributes in the first step. The numerical, probabilistic as well as evidential attributes are generated according to the graph structure. In the second step, some noise will be added to the attributes. We perform experiments on graphs with different types of attributes and compare the detection results in terms of the Normalized Mutual Information (NMI) values. The experimental results show that the clustering with evidential attributes gives better results comparing to those with probabilistic and numerical attributes. This illustrates the advantages of evidential attributes.Comment: 20th International Conference on Information Fusion, Jul 2017, Xi'an, Chin

Supervised / unsupervised change detection

The aim of this deliverable is to provide an overview of the state of the art in change detection techniques and a critique of what could be programmed to derive SENSUM products. It is the product of the collaboration between UCAM and EUCENTRE. The document includes as a necessary requirement a discussion about a proposed technique for co-registration. Since change detection techniques require an assessment of a series of images and the basic process involves comparing and contrasting the similarities and differences to essentially spot changes, co-registration is the first step. This ensures that the user is comparing like for like. The developed programs would then be used on remotely sensed images for applications in vulnerability assessment and post-disaster recovery assessment and monitoring. One key criterion is to develop semi-automated and automated techniques. A series of available techniques are presented along with the advantages and disadvantages of each method. The descriptions of the implemented methods are included in the deliverable D2.7 ”Software Package SW2.3”. In reviewing the available change detection techniques, the focus was on ways to exploit medium resolution imagery such as Landsat due to its free-to-use license and since there is a rich historical coverage arising from this satellite series. Regarding the change detection techniques with high resolution images, this was also examined and a recovery specific change detection index is discussed in the report

Shannon entropy as a reliable score to diagnose human fibroelastic degenerative mitral chords: a micro-ct ex-vivo study

This paper is aimed at identifying by means of micro-CT the microstructural differences between normal and degenerative mitral marginal chordae tendineae. The control group is composed of 21 normal chords excised from 14 normal mitral valves from heart transplant recipients. The experimental group comprises 22 degenerative fibroelastic chords obtained at surgery from 11 pathological valves after mitral repair or replacement. In the control group the superficial endothelial cells and spongiosa layer remained intact, covering the wavy core collagen. In contrast, in the experimental group the collagen fibers were arranged as straightened thick bundles in a parallel configuration. 100 cross-sections were examined by micro-CT from each chord. Each image was randomized through the K-means machine learning algorithm and then, the global and local Shannon entropies were obtained. The optimum number of clusters, K, was estimated to maximize the differences between normal and degenerative chords in global and local Shannon entropy; the p-value after a nested ANOVA test was chosen as the parameter to be minimized. Optimum results were obtained with global Shannon entropy and 2≤K≤7, providing p < 0.01; for K=3, p = 2.86⋅10-³. These findings open the door to novel perioperative diagnostic methods in order to avoid or reduce postoperative mitral valve regurgitation recurrences.This work is supported by the “Ministerio de Economía, Industria y Competitividad” (MINECO) and the “Instituto de Salud Carlos III” (ISCIII) of Spain, through projects INTRACARDIO (DTS17/00056) and CIBER-BBN (co-financed by FEDER funds) and IDIVAL under project DiCuTen (INNVAL16/02). The technical contributions from the members of the DICUTEN and the financial contribution from the IDIVAL are gratefully acknowledged. The authors declare that they have no known competing financial interests or personal relationships that could have appeared to influence the work reported in this paper. This study was approved by the Ethical Committee of Clinical Research of Cantabria – IDIVAL (Acta 02/2018)

Surface Appearance Estimation from Video Sequences

The realistic virtual reproduction of real world objects using Computer Graphics techniques requires the accurate acquisition and reconstruction of both 3D geometry and surface appearance. Unfortunately, in several application contexts, such as Cultural Heritage (CH), the reflectance acquisition can be very challenging due to the type of object to acquire and the digitization conditions. Although several methods have been proposed for the acquisition of object reflectance, some intrinsic limitations still make its acquisition a complex task for CH artworks: the use of specialized instruments (dome, special setup for camera and light source, etc.); the need of highly controlled acquisition environments, such as a dark room; the difficulty to extend to objects of arbitrary shape and size; the high level of expertise required to assess the quality of the acquisition. The Ph.D. thesis proposes novel solutions for the acquisition and the estimation of the surface appearance in fixed and uncontrolled lighting conditions with several degree of approximations (from a perceived near diffuse color to a SVBRDF), taking advantage of the main features that differentiate a video sequences from an unordered photos collections: the temporal coherence; the data redundancy; the easy of the acquisition, which allows acquisition of many views of the object in a short time. Finally, Reflectance Transformation Imaging (RTI) is an example of widely used technology for the acquisition of the surface appearance in the CH field, even if limited to single view Reflectance Fields of nearly flat objects. In this context, the thesis addresses also two important issues in RTI usage: how to provide better and more flexible virtual inspection capabilities with a set of operators that improve the perception of details, features and overall shape of the artwork; how to increase the possibility to disseminate this data and to support remote visual inspection of both scholar and ordinary public

Segmentation of brain MRI during early childhood

The objective of this thesis is the development of automatic methods to measure the changes in volume and growth of brain structures in prematurely born infants. Automatic tools for accurate tissue quantification from magnetic resonance images can provide means for understanding how the neurodevelopmental effects of the premature birth, such as cognitive, neurological or behavioural impairment, are related to underlying changes in brain anatomy. Understanding these changes forms a basis for development of suitable treatments to improve the outcomes of premature birth. In this thesis we focus on the segmentation of brain structures from magnetic resonance images during early childhood. Most of the current brain segmentation techniques have been focused on the segmentation of adult or neonatal brains. As a result of rapid development, the brain anatomy during early childhood differs from anatomy of both adult and neonatal brains and therefore requires adaptations of available techniques to produce good results. To address the issue of anatomical differences of the brain during early childhood compared to other age-groups, population-specific deformable and probabilistic atlases are introduced. A method for generation of population-specific prior information in form of a probabilistic atlas is proposed and used to enhance existing segmentation algorithms. The evaluation of registration-based and intensity-based approaches shows the techniques to be complementary in the quality of automatic segmentation in different parts of the brain. We propose a novel robust segmentation method combining the advantages of both approaches. The method is based on multiple label propagation using B-spline non-rigid registration followed by EM segmentation. Intensity inhomogeneity is a shading artefact resulting from the acquisition process, which significantly affects modern high resolution MR data acquired at higher magnetic field strengths. A novel template based method focused on correcting the intensity inhomogeneity in data acquired at higher magnetic field strengths is therefore proposed. The proposed segmentation method combined with proposed intensity inhomogeneity correction method offers a robust tool for quantification of volumes and growth of brain structures during early childhood. The tool have been applied to 67 T1-weigted images of subject at one and two years of age

Acquisition of Surface Light Fields from Videos

La tesi presenta un nuovo approccio per la stima di Surface Light Field di oggetti reali, a partire da sequenze video acquisite in condizioni di illuminazione fisse e non controllate. Il metodo proposto si basa sulla separazione delle due componenti principali dell'apparenza superficiale dell'oggetto: la componente diffusiva, modellata come colore RGB, e la componente speculare, approssimata mediante un modello parametrico funzione della posizione dell'osservatore. L'apparenza superficiale ricostruita permette una visualizzazione fotorealistica e in real-time dell'oggetto al variare della posizione dell'osservatore, consentendo una navigazione 3D interattiva