Coordinating views for data visualisation and algorithmic profiling

A number of researchers have designed visualisation systems that consist of multiple components, through which data and interaction commands flow. Such multistage (hybrid) models can be used to reduce algorithmic complexity, and to open up intermediate stages of algorithms for inspection and steering. In this paper, we present work on aiding the developer and the user of such algorithms through the application of interactive visualisation techniques. We present a set of tools designed to profile the performance of other visualisation components, and provide further functionality for the exploration of high dimensional data sets. Case studies are provided, illustrating the application of the profiling modules to a number of data sets. Through this work we are exploring ways in which techniques traditionally used to prepare for visualisation runs, and to retrospectively analyse them, can find new uses within the context of a multi-component visualisation system

Visualisation techniques for users and designers of layout algorithms

Visualisation systems consisting of a set of components through which data and interaction commands flow have been explored by a number of researchers. Such hybrid and multistage algorithms can be used to reduce overall computation time, and to provide views of the data that show intermediate results and the outputs of complementary algorithms. In this paper we present work on expanding the range and variety of such components, with two new techniques for analysing and controlling the performance of visualisation processes. While the techniques presented are quite different, they are unified within HIVE: a visualisation system based upon a data-flow model and visual programming. Embodied within this system is a framework for weaving together our visualisation components to better afford insight into data and also deepen understanding of the process of the data's visualisation. We describe the new components and offer short case studies of their application. We demonstrate that both analysts and visualisation designers can benefit from a rich set of components and integrated tools for profiling performance

Analyzing the Facebook Friendship Graph

Online Social Networks (OSN) during last years acquired a\ud huge and increasing popularity as one of the most important emerging Web phenomena, deeply modifying the behavior of users and contributing to build a solid substrate of connections and relationships among people using the Web. In this preliminary work paper, our purpose is to analyze Facebook, considering a signi�cant sample of data re\ud ecting relationships among subscribed users. Our goal is to extract, from this platform, relevant information about the distribution of these relations and exploit tools and algorithms provided by the Social Network Analysis (SNA) to discover and, possibly, understand underlying similarities\ud between the developing of OSN and real-life social networks

Tag-Cloud Drawing: Algorithms for Cloud Visualization

Tag clouds provide an aggregate of tag-usage statistics. They are typically sent as in-line HTML to browsers. However, display mechanisms suited for ordinary text are not ideal for tags, because font sizes may vary widely on a line. As well, the typical layout does not account for relationships that may be known between tags. This paper presents models and algorithms to improve the display of tag clouds that consist of in-line HTML, as well as algorithms that use nested tables to achieve a more general 2-dimensional layout in which tag relationships are considered. The first algorithms leverage prior work in typesetting and rectangle packing, whereas the second group of algorithms leverage prior work in Electronic Design Automation. Experiments show our algorithms can be efficiently implemented and perform well.Comment: To appear in proceedings of Tagging and Metadata for Social Information Organization (WWW 2007

Scientists in the MIST: Simplifying Interface Design for End Users

We are building a Malleable Interactive Software Toolkit (MIST), a tool set and infrastructure to simplify the design and construction of dynamically-reconfigurable (malleable) interactive software. Malleable software offers the end-user powerful tools to reshape their interactive environment on the fly. We aim to make the construction of such software straightforward, and to make reconfiguration of the resulting systems approachable and manageable to an educated, but non-specialist, user. To do so, we draw on a diverse body of existing research on alternative approaches to user interface (UI) and interactive software construction, including declarative UI languages, constraint-based programming and UI management, reflection and data-driven programming, and visual programming techniques

Recent trends, technical concepts and components of computer-assisted orthopedic surgery systems: A comprehensive review

Computer-assisted orthopedic surgery (CAOS) systems have become one of the most important and challenging types of system in clinical orthopedics, as they enable precise treatment of musculoskeletal diseases, employing modern clinical navigation systems and surgical tools. This paper brings a comprehensive review of recent trends and possibilities of CAOS systems. There are three types of the surgical planning systems, including: systems based on the volumetric images (computer tomography (CT), magnetic resonance imaging (MRI) or ultrasound images), further systems utilize either 2D or 3D fluoroscopic images, and the last one utilizes the kinetic information about the joints and morphological information about the target bones. This complex review is focused on three fundamental aspects of CAOS systems: their essential components, types of CAOS systems, and mechanical tools used in CAOS systems. In this review, we also outline the possibilities for using ultrasound computer-assisted orthopedic surgery (UCAOS) systems as an alternative to conventionally used CAOS systems.Web of Science1923art. no. 519

Information visualization for DNA microarray data analysis: A critical review

Graphical representation may provide effective means of making sense of the complexity and sheer volume of data produced by DNA microarray experiments that monitor the expression patterns of thousands of genes simultaneously. The ability to use ldquoabstractrdquo graphical representation to draw attention to areas of interest, and more in-depth visualizations to answer focused questions, would enable biologists to move from a large amount of data to particular records they are interested in, and therefore, gain deeper insights in understanding the microarray experiment results. This paper starts by providing some background knowledge of microarray experiments, and then, explains how graphical representation can be applied in general to this problem domain, followed by exploring the role of visualization in gene expression data analysis. Having set the problem scene, the paper then examines various multivariate data visualization techniques that have been applied to microarray data analysis. These techniques are critically reviewed so that the strengths and weaknesses of each technique can be tabulated. Finally, several key problem areas as well as possible solutions to them are discussed as being a source for future work

Recovering complete and draft population genomes from metagenome datasets.

Assembly of metagenomic sequence data into microbial genomes is of fundamental value to improving our understanding of microbial ecology and metabolism by elucidating the functional potential of hard-to-culture microorganisms. Here, we provide a synthesis of available methods to bin metagenomic contigs into species-level groups and highlight how genetic diversity, sequencing depth, and coverage influence binning success. Despite the computational cost on application to deeply sequenced complex metagenomes (e.g., soil), covarying patterns of contig coverage across multiple datasets significantly improves the binning process. We also discuss and compare current genome validation methods and reveal how these methods tackle the problem of chimeric genome bins i.e., sequences from multiple species. Finally, we explore how population genome assembly can be used to uncover biogeographic trends and to characterize the effect of in situ functional constraints on the genome-wide evolution