Semi Automatic Segmentation of a Rat Brain Atlas

A common approach to segment an MRI dataset is to use a standard atlas to identify different regions of interest. Existing 2D atlases, prepared by freehand tracings of templates, are seldom complete for 3D volume segmentation. Although many of these atlases are prepared in graphics packages like Adobe Illustrator® (AI), which present the geometrical entities based on their mathematical description, the drawings are not numerically robust. This work presents an automatic conversion of graphical atlases suitable for further usage such as creation of a segmented 3D numerical atlas. The system begins with DXF (Drawing Exchange Format) files of individual atlas drawings. The drawing entities are mostly in cubic spline format. Each segment of the spline is reduced to polylines, which reduces the complexity of data. The system merges overlapping nodes and polylines to make the database of the drawing numerically integrated, i.e. each location within the drawing is referred by only one point, each line is uniquely defined by only two nodes, etc. Numerous integrity diagnostics are performed to eliminate duplicate or overlapping lines, extraneous markers, open-ended loops, etc. Numerically intact closed loops are formed using atlas labels as seed points. These loops specify the boundary and tissue type for each area. The final results preserve the original atlas with its 1272 different neuroanatomical regions which are complete, non-overlapping, contiguous sub-areas whose boundaries are composed of unique polyline

SAVOIAS: A Diverse, Multi-Category Visual Complexity Dataset

Visual complexity identifies the level of intricacy and details in an image or the level of difficulty to describe the image. It is an important concept in a variety of areas such as cognitive psychology, computer vision and visualization, and advertisement. Yet, efforts to create large, downloadable image datasets with diverse content and unbiased groundtruthing are lacking. In this work, we introduce Savoias, a visual complexity dataset that compromises of more than 1,400 images from seven image categories relevant to the above research areas, namely Scenes, Advertisements, Visualization and infographics, Objects, Interior design, Art, and Suprematism. The images in each category portray diverse characteristics including various low-level and high-level features, objects, backgrounds, textures and patterns, text, and graphics. The ground truth for Savoias is obtained by crowdsourcing more than 37,000 pairwise comparisons of images using the forced-choice methodology and with more than 1,600 contributors. The resulting relative scores are then converted to absolute visual complexity scores using the Bradley-Terry method and matrix completion. When applying five state-of-the-art algorithms to analyze the visual complexity of the images in the Savoias dataset, we found that the scores obtained from these baseline tools only correlate well with crowdsourced labels for abstract patterns in the Suprematism category (Pearson correlation r=0.84). For the other categories, in particular, the objects and advertisement categories, low correlation coefficients were revealed (r=0.3 and 0.56, respectively). These findings suggest that (1) state-of-the-art approaches are mostly insufficient and (2) Savoias enables category-specific method development, which is likely to improve the impact of visual complexity analysis on specific application areas, including computer vision.Comment: 10 pages, 4 figures, 4 table

An Evolutionary Approach to Adaptive Image Analysis for Retrieving and Long-term Monitoring Historical Land Use from Spatiotemporally Heterogeneous Map Sources

Land use changes have become a major contributor to the anthropogenic global change. The ongoing dispersion and concentration of the human species, being at their orders unprecedented, have indisputably altered Earth’s surface and atmosphere. The effects are so salient and irreversible that a new geological epoch, following the interglacial Holocene, has been announced: the Anthropocene. While its onset is by some scholars dated back to the Neolithic revolution, it is commonly referred to the late 18th century. The rapid development since the industrial revolution and its implications gave rise to an increasing awareness of the extensive anthropogenic land change and led to an urgent need for sustainable strategies for land use and land management. By preserving of landscape and settlement patterns at discrete points in time, archival geospatial data sources such as remote sensing imagery and historical geotopographic maps, in particular, could give evidence of the dynamic land use change during this crucial period. In this context, this thesis set out to explore the potentials of retrospective geoinformation for monitoring, communicating, modeling and eventually understanding the complex and gradually evolving processes of land cover and land use change. Currently, large amounts of geospatial data sources such as archival maps are being worldwide made online accessible by libraries and national mapping agencies. Despite their abundance and relevance, the usage of historical land use and land cover information in research is still often hindered by the laborious visual interpretation, limiting the temporal and spatial coverage of studies. Thus, the core of the thesis is dedicated to the computational acquisition of geoinformation from archival map sources by means of digital image analysis. Based on a comprehensive review of literature as well as the data and proposed algorithms, two major challenges for long-term retrospective information acquisition and change detection were identified: first, the diversity of geographical entity representations over space and time, and second, the uncertainty inherent to both the data source itself and its utilization for land change detection. To address the former challenge, image segmentation is considered a global non-linear optimization problem. The segmentation methods and parameters are adjusted using a metaheuristic, evolutionary approach. For preserving adaptability in high level image analysis, a hybrid model- and data-driven strategy, combining a knowledge-based and a neural net classifier, is recommended. To address the second challenge, a probabilistic object- and field-based change detection approach for modeling the positional, thematic, and temporal uncertainty adherent to both data and processing, is developed. Experimental results indicate the suitability of the methodology in support of land change monitoring. In conclusion, potentials of application and directions for further research are given

Image similarity in medical images

Recent experiments have indicated a strong influence of the substrate grain orientation on the self-ordering in anodic porous alumina. Anodic porous alumina with straight pore channels grown in a stable, self-ordered manner is formed on (001) oriented Al grain, while disordered porous pattern is formed on (101) oriented Al grain with tilted pore channels growing in an unstable manner. In this work, numerical simulation of the pore growth process is carried out to understand this phenomenon. The rate-determining step of the oxide growth is assumed to be the Cabrera-Mott barrier at the oxide/electrolyte (o/e) interface, while the substrate is assumed to determine the ratio β between the ionization and oxidation reactions at the metal/oxide (m/o) interface. By numerically solving the electric field inside a growing porous alumina during anodization, the migration rates of the ions and hence the evolution of the o/e and m/o interfaces are computed. The simulated results show that pore growth is more stable when β is higher. A higher β corresponds to more Al ionized and migrating away from the m/o interface rather than being oxidized, and hence a higher retained O:Al ratio in the oxide. Experimentally measured oxygen content in the self-ordered porous alumina on (001) Al is indeed found to be about 3% higher than that in the disordered alumina on (101) Al, in agreement with the theoretical prediction. The results, therefore, suggest that ionization on (001) Al substrate is relatively easier than on (101) Al, and this leads to the more stable growth of the pore channels on (001) Al

Document preprocessing and fuzzy unsupervised character classification

This dissertation presents document preprocessing and fuzzy unsupervised character classification for automatically reading daily-received office documents that have complex layout structures, such as multiple columns and mixed-mode contents of texts, graphics and half-tone pictures. First, the block segmentation algorithm is performed based on a simple two-step run-length smoothing to decompose a document into single-mode blocks. Next, the block classification is performed based on the clustering rules to classify each block into one of the types such as text, horizontal or vertical lines, graphics, and pictures. The mean white-to-black transition is shown as an invariance for textual blocks, and is useful for block discrimination. A fuzzy model for unsupervised character classification is designed to improve the robustness, correctness, and speed of the character recognition system. The classification procedures are divided into two stages. The first stage separates the characters into seven typographical categories based on word structures of a text line. The second stage uses pattern matching to classify the characters in each category into a set of fuzzy prototypes based on a nonlinear weighted similarity function. A fuzzy model of unsupervised character classification, which is more natural in the representation of prototypes for character matching, is defined and the weighted fuzzy similarity measure is explored. The characteristics of the fuzzy model are discussed and used in speeding up the classification process. After classification, the character recognition procedure is simply applied on the limited versions of the fuzzy prototypes. To avoid information loss and extra distortion, an topography-based approach is proposed to apply directly on the fuzzy prototypes to extract the skeletons. First, a convolution by a bell-shaped function is performed to obtain a smooth surface. Second, the ridge points are extracted by rule-based topographic analysis of the structure. Third, a membership function is assigned to ridge points with values indicating the degrees of membership with respect to the skeleton of an object. Finally, the significant ridge points are linked to form strokes of skeleton, and the clues of eigenvalue variation are used to deal with degradation and preserve connectivity. Experimental results show that our algorithm can reduce the deformation of junction points and correctly extract the whole skeleton although a character is broken into pieces. For some characters merged together, the breaking candidates can be easily located by searching for the saddle points. A pruning algorithm is then applied on each breaking position. At last, a multiple context confirmation can be applied to increase the reliability of breaking hypotheses

Computational intelligence approaches to robotics, automation, and control [Volume guest editors]

No abstract available