David Borland

Rainbow Color Map (Still) Considered Harmful

In this article, we reiterate the characteristics that make the rainbow color map a poor choice, provide examples that clearly illustrate these deficiencies even on simple data sets, and recommend better color maps for several categories of display. The goal is to make the rainbow color map as rare in visualization as the goto statement is in programming - which complicates the task of analyzing and verifying program correctness

A method for normalizing histology slides for quantitative analysis

Inconsistencies in the preparation of histology slides make it difficult to perform quantitative analysis on their results. In this paper we provide two mechanisms for overcoming many of the known inconsistencies in the staining process, thereby bringing slides that were processed or stored under very different conditions into a common, normalized space to enable improved quantitative analysis.

Innovative information visualization of electronic health record data: a systematic review

Objective This study investigates the use of visualization techniques reported between 1996 and 2013 and evaluates innovative approaches to information visualization of electronic health record (EHR) data for knowledge discovery. Methods An electronic literature search was conducted May–July 2013 using MEDLINE and Web of Knowledge, supplemented by citation searching, gray literature searching, and reference list reviews. General search terms were used to assure a comprehensive document search. Results Beginning with 891 articles, the number of articles was reduced by eliminating 191 duplicates. A matrix was developed for categorizing all abstracts and to assist with determining those to be excluded for review. Eighteen articles were included in the final analysis. Discussion Several visualization techniques have been extensively researched. The most mature system is LifeLines and its applications as LifeLines2, EventFlow, and LifeFlow. Initially, research focused on records from a single patient and visualization of the complex data related to one patient. Since 2010, the techniques under investigation are for use with large numbers of patient records and events. Most are linear and allow interaction through scaling and zooming to resize. Color, density, and filter techniques are commonly used for visualization. Conclusions With the burgeoning increase in the amount of electronic healthcare data, the potential for knowledge discovery is significant if data are managed in innovative and effective ways. We identify challenges discovered by previous EHR visualization research, which will help researchers who seek to design and improve visualization techniques.

How to Build an Embodiment Lab: Achieving Body Representation Illusions in Virtual Reality

Advances in computer graphics algorithms and virtual reality (VR) systems, together with the reduction in cost of associated equipment, have led scientists to consider VR as a useful tool for conducting experimental studies in fields such as neuroscience and experimental psychology. In particular virtual body ownership, where the feeling of ownership over a virtual body is elicited in the participant, has become a useful tool in the study of body representation, in cognitive neuroscience and psychology, concerned with how the brain represents the body. Although VR has been shown to be a useful tool for exploring body ownership illusions, integrating the various technologies necessary for such a system can be daunting. In this paper we discuss the technical infrastructure necessary to achieve virtual embodiment. We describe a basic VR system and how it may be used for this purpose, and then extend this system with the introduction of real-time motion capture, a simple haptics system and the integration of physiological and brain electrical activity recordings.

Appearance normalization of histology slides

This paper presents a method for automatic color and intensity normalization of digitized histology slides stained with two different agents. In comparison to previous approaches, prior information on the stain vectors is used in the plane estimation process, resulting in improved stability of the estimates. Due to the prevalence of hematoxylin and eosin staining for histology slides, the proposed method has significant practical utility. In particular, it can be used as a first step to standardize appearance across slides and is effective at countering effects due to differing stain amounts and protocols and counteracting slide fading. The approach is validated against non-prior plane-fitting using synthetic experiments and 13 real datasets. Results of application of the method to adjustment of faded slides are given, and the effectiveness of the method in aiding statistical classification is shown.

Image and Statistical Analysis of Melanocytic Histology

Miedema J, Marron J S, Niethammer M, Borland D, Woosley J, Coposky J, Wei S, Reisner H & Thomas N E 
(2012) Histopathology 61, 436–444

Data-Driven Healthcare: Challenges and Opportunities for Interactive Visualization

The healthcare industrys widespread digitization efforts are reshaping one of the largest sectors of the worlds economy. This transformation is enabling systems that promise to use ever-improving data-driven evidence to help doctors make more precise diagnoses, institutions identify at risk patients for intervention, clinicians develop more personalized treatment plans, and researchers better understand medical outcomes within complex patient populations. Given the scale and complexity of the data required to achieve these goals, advanced data visualization tools have the potential to play a critical role. This article reviews a number of visualization challenges unique to the healthcare discipline.

Collaboration-Specific Color-Map Design

Designing color maps for domain experts differs fundamentally from designing them for general audiences. The same human-perception issues are at play, but with domain experts, domain-specific knowledge should inform the design choices. So, close collaboration between the visualization designers and experts is necessary. This article presents guidelines derived from such collaboration to help designers create effective color maps.

Lessons about virtual environment software systems from 20 years of ve building

What are desirable and undesirable features of virtual environment (VE) software architectures? What should be present (and absent) from such systems if they are to be optimally useful? How should they be structured? In order to help answer these questions, we present experience from application designers, toolkit designers, and VE system architects along with examples of useful features from existing systems. Topics are organized under the major headings of 3D space management, supporting display hardware, interaction, event management, time management, computation, portability, and the observation that less can be better. Lessons learned are presented as discussion of the issues, field experiences, nuggets of knowledge, and case studies.

An Evaluation of Self-Avatar Eye Movement for Virtual Embodiment

We present a novel technique for animating self-avatar eye movements in an immersive virtual environment without the use of eye-tracking hardware, and evaluate our technique via a two-alternative, forced-choice-with-confidence experiment that compares this simulated-eye-tracking condition to a no-eye-tracking condition and a real-eye-tracking condition in which the avatars eyes were rotated with an eye tracker. Viewing the reflection of a tracked self-avatar is often used in virtual-embodiment scenarios to induce in the participant the illusion that the virtual body of the self-avatar belongs to them, however current tracking methods do not account for the movements of the participants eyes, potentially lessening this body-ownership illusion. The results of our experiment indicate that, although blind to the experimental conditions, participants noticed differences between eye behaviors, and found that the real and simulated conditions represented their behavior better than the no-eye-tracking condition. Additionally, no statistical difference was found when choosing between the real and simulated conditions. These results suggest that adding eye movements to selfavatars produces a subjective increase in self-identification with the avatar due to a more complete representation of the participants behavior, which may be beneficial for inducing virtual embodiment, and that effective results can be obtained without the need for any specialized eye-tracking hardware.