Finding and Visualizing Relevant Subspaces for Clustering High-Dimensional Astronomical Data Using Connected Morphological Operators

Data sets in many scientific areas are growing to enormous sizes. For example, modern astronomical surveys provide not only image data but also catalogues of millions of objects (stars, galaxies), each object with hundreds of associated parameters. Gene expression ex-periments produce data about the complete genome of an organism under different conditions and at a sequence of time points. Ex-ploration of such very high-dimensional data spaces poses a huge challenge. Subspace clustering is one among several approaches which have been proposed for this purpose in recent years. How-ever, many clustering algorithms require the user to set a large num-ber of parameters without any guidelines. Some methods also do not provide a concise summary of the datasets, or, if they do, they lack additional important information such as the number of clus-ters present or the significance of the clusters

A visual analytics approach to feature discovery and subspace exploration in protein flexibility matrices

The vast amount of information generated by domain scientists makes the transi- tion from data to knowledge difficult and often impedes important discoveries. For example, the knowledge gained from protein flexibility data sets can speed advances in genetic therapies and drug discovery. However, these models generate so much data that large scale analysis by traditional methods is almost impossible. This hinders biomedical advances. Visual analytics is a new field that can help alleviate this problem. Visual analytics attempts to seamlessly integrate human abilities in pattern recognition, domain knowledge, and synthesis with automatic analysis techniques. I propose a novel, visual analytics pipeline and prototype which eases discovery, com- parison, and exploration in the outputs of complex computational biology datasets. The approach utilizes automatic feature extraction by image segmentation to locate regions of interest in the data, visually presents the features to users in an intuitive way, and provides rich interactions for multi-resolution visual exploration. Functional- ity is also provided for subspace exploration based on automatic similarity calculation and comparative visualizations. The effectiveness of feature discovery and subspace exploration is shown through a user study and user scenarios. Feedback from analysts confirms the suitability of the proposed solution to domain tasks

Doctor of Philosophy

dissertationWith the ever-increasing amount of available computing resources and sensing devices, a wide variety of high-dimensional datasets are being produced in numerous fields. The complexity and increasing popularity of these data have led to new challenges and opportunities in visualization. Since most display devices are limited to communication through two-dimensional (2D) images, many visualization methods rely on 2D projections to express high-dimensional information. Such a reduction of dimension leads to an explosion in the number of 2D representations required to visualize high-dimensional spaces, each giving a glimpse of the high-dimensional information. As a result, one of the most important challenges in visualizing high-dimensional datasets is the automatic filtration and summarization of the large exploration space consisting of all 2D projections. In this dissertation, a new type of algorithm is introduced to reduce the exploration space that identifies a small set of projections that capture the intrinsic structure of high-dimensional data. In addition, a general framework for summarizing the structure of quality measures in the space of all linear 2D projections is presented. However, identifying the representative or informative projections is only part of the challenge. Due to the high-dimensional nature of these datasets, obtaining insights and arriving at conclusions based solely on 2D representations are limited and prone to error. How to interpret the inaccuracies and resolve the ambiguity in the 2D projections is the other half of the puzzle. This dissertation introduces projection distortion error measures and interactive manipulation schemes that allow the understanding of high-dimensional structures via data manipulation in 2D projections

Cognitive Foundations for Visual Analytics

In this report, we provide an overview of scientific/technical literature on information visualization and VA. Topics discussed include an update and overview of the extensive literature search conducted for this study, the nature and purpose of the field, major research thrusts, and scientific foundations. We review methodologies for evaluating and measuring the impact of VA technologies as well as taxonomies that have been proposed for various purposes to support the VA community. A cognitive science perspective underlies each of these discussions