Current web-based collaboration systems, such as Google Hangouts, WebEx, and Skype, primarily enable single users to work with remote collaborators through video conferencing and desktop mirroring. The original SAGE software, developed in 2004 and adopted at over one hundred international sites, was designed to enable groups to work in front of large shared displays in order to solve problems that required juxtaposing large volumes of information in ultra highresolution. We have developed SAGE2, as a complete redesign and implementation of SAGE, using cloud-based and web browser technologies in order to enhance data intensive colocated and remote collaboration. This paper provides an overview of SAGE2's infrastructure, the technical design challenges, and the afforded benefits to data intensive collaboration. Lastly, we provide insight on how future collaborative applications can be developed to support large displays and demonstrate the power and flexibility that SAGE2 offers in collaborative scenarios through a series of use cases.
Constructing integrative visualizations that simultaneously cater to a variety of data types is challenging. Hybrid-reality environments blur the line between virtual environments and tiled display walls. They incorporate high-resolution, stereoscopic displays, which can be used to juxtapose large, heterogeneous datasets while providing a range of naturalistic interaction schemes. They thus empower designers to construct integrative visualizations that more effectively mash up 2D, 3D, temporal, and multivariate datasets.
BackgroundMolecular and systems biologists are tasked with the comprehension and analysis of incredibly complex networks of biochemical interactions, called pathways, that occur within a cell. Through interviews with domain experts, we identified four common tasks that require an understanding of the causality within pathways, that is, the downstream and upstream relationships between proteins and biochemical reactions, including: visualizing downstream consequences of perturbing a protein; finding the shortest path between two proteins; detecting feedback loops within the pathway; and identifying common downstream elements from two or more proteins.ResultsWe introduce ReactionFlow, a visual analytics application for pathway analysis that emphasizes the structural and causal relationships amongst proteins, complexes, and biochemical reactions within a given pathway. To support the identified causality analysis tasks, user interactions allow an analyst to filter, cluster, and select pathway components across linked views. Animation is used to highlight the flow of activity through a pathway.ConclusionsWe evaluated ReactionFlow by providing our application to two domain experts who have significant experience with biomolecular pathways, after which we conducted a series of in-depth interviews focused on each of the four causality analysis tasks. Their feedback leads us to believe that our techniques could be useful to researchers who must be able to understand and analyze the complex nature of biological pathways. ReactionFlow is available at https://github.com/CreativeCodingLab/ReactionFlow.
In this paper, we present SAGE2, a software framework that enables local and remote collaboration on Scalable Resolution Display Environments (SRDE). An SRDE can be any configuration of displays, ranging from a single monitor to a wall of tiled flat-panel displays. SAGE2 creates a seamless ultra-high resolution desktop across the SRDE. Users can wirelessly connect to the SRDE with their own devices in order to interact with the system. Many users can simultaneously utilize a drag-and-drop interface to transfer local documents and show them on the SRDE, use a mouse pointer and keyboard to interact with existing content that is on the SRDE and share their screen so that it is viewable to all. SAGE2 can be used in many configurations and is able to support many communities working with various types of media and high-resolution content, from research meetings to creative session to education.SAGE2 is browser-based, utilizing a web server to host content, WebSockets for message passing and HTML with JavaScript for rendering and interaction. Recent web developments, with the emergence of HTML5, have allowed browsers to use advanced rendering techniques without requiring plug-ins (canvas drawing, WebGL 3D rendering, native video player, etc.). One major benefit of browser-based software is that there are no installation requirements for users and it is inherently cross-platform. A user simply needs a web browser on the device he/she wishes to use as an interaction tool for the SRDE. This lowers considerably the barrier of entry to engage in meaningful collaboration sessions.
The goal of our research is to support fullfledged dialogue between a user and a system that transforms the user queries into visualizations. So far, we have collected a corpus where users explore data via visualizations; we have annotated the corpus for user intentions; and we have developed the core NL-to-visualization pipeline.
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