Windows on the world: 2D windows for 3D augmented reality
UIST '93 Proceedings of the 6th annual ACM symposium on User interface software and technology
Designing presentation in multimedia interfaces
CHI '94 Proceedings of the SIGCHI Conference on Human Factors in Computing Systems
Information visualization: perception for design
Information visualization: perception for design
Usability engineering: scenario-based development of human-computer interaction
Usability engineering: scenario-based development of human-computer interaction
View management for virtual and augmented reality
Proceedings of the 14th annual ACM symposium on User interface software and technology
IMMSIM, a flexible model for in machina experiments on immune system responses
Future Generation Computer Systems - Cellular automata CA 2000 and ACRI 2000
Information-rich virtual environments: theory, tools, and research agenda
Proceedings of the ACM symposium on Virtual reality software and technology
A Model for Understanding How Virtual Reality Aids Complex Conceptual Learning
Presence: Teleoperators and Virtual Environments
Proceedings of the ACM symposium on Virtual reality software and technology
IRVE-Serve: a visualization framework for spatially-registered time series data
Proceedings of the twelfth international conference on 3D web technology
Agent-based modeling of host-pathogen systems: The successes and challenges
Information Sciences: an International Journal
The role of Depth and Gestalt cues in information-rich virtual environments
International Journal of Human-Computer Studies
Modeling influenza viral dynamics in tissue
ICARIS'06 Proceedings of the 5th international conference on Artificial Immune Systems
ICCSA'06 Proceedings of the 6th international conference on Computational Science and Its Applications - Volume Part I
BioScape: A Modeling and Simulation Language for Bacteria-Materials Interactions
Electronic Notes in Theoretical Computer Science (ENTCS)
Simulating Anti-adhesive and Antibacterial Bifunctional Polymers for Surface Coating using BioScape
Proceedings of the International Conference on Bioinformatics, Computational Biology and Biomedical Informatics
Computational and mathematical models of the JAK-STAT signal transduction pathway
Proceedings of the 2013 Summer Computer Simulation Conference
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Increasingly, biology researchers and medical practitioners are using computational tools to model and analyze dynamic systems across scales from the macro to the cellular to the biochemical level. We are using Information-Rich Virtual Environments (IRVEs) to display the results of biological simulations, and to allow users to interact with those simulations. While simulation architectures, algorithms, and processing power have enjoyed continuous optimization to date, the user interfaces to these applications have not. The problems of designing such IRVE interfaces arise from the requirement that a variety of spatial and abstract information must be integrated into one coherent experience for the user. This paper explores the design and development issues encountered in our implementation of a bioinformatics application, PathSim (Pathogen Simulation). Specifically, we describe the information and interaction issues in building a front-end tool to visually analyze the results of an agent-based immunology simulation. Finally, we present custom scenegraph objects and consider candidate functionality for future standards components.