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Towards the Cytoscape Cyberinfrastructure
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Towards the Cytoscape Cyberinfrastructure Keiichiro Ono Cytoscape Core Developer Team UC, San Diego Trey Ideker Lab / National Resource for Network Biology 7/7/2014 Lab Meeting
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Ongoing projects and future plan for the Cytoscape Cyberinfrastructure project
Transcript of Towards the Cytoscape Cyberinfrastructure
Towards the Cytoscape Cyberinfrastructure
Keiichiro OnoCytoscape Core Developer TeamUC, San Diego Trey Ideker Lab / National Resource for Network Biology!7/7/2014 Lab Meeting
Outline
Ongoing Projects:!!• Interactive graph visualization
sharing web application• RESTful API for Cytoscape
Cytoscape Cyberinfrastructure
• Integrate Cytoscape eco-system into larger workflows
• Data and computing resources will be shared over the network
• Utilizes standard tools, such as RStudio / IPython Notebook, as the primary workbench for advanced users
Data Bus (Internet)
Raw Data Files
Annotations
Experimental Data
Networks
Internal Databases Web Application using Cytoscape.js
Web Browsers
Public Data Services
NDExOther Web Services
PSICQUIC Services
External Computing Resources
For Graph Layout / Statistical Analysis / Data Preprocessing
Interactive Analysis Shells
RStudio
NumPySciPy
NetworkXIPython Notebook
File Hosting Services
Cytoscape Desktop
RESTful API Module for Cytoscape
Cytoscape Apps
For Data Sharing / Visualization
Data Bus (Internet)
Raw Data Files
Annotations
Experimental Data
Networks
Internal Databases Web Application using Cytoscape.js
Web Browsers
Public Data Services
NDExOther Web Services
PSICQUIC Services
External Computing Resources
For Graph Layout / Statistical Analysis / Data Preprocessing
Interactive Analysis Shells
RStudio
NumPySciPy
NetworkXIPython Notebook
File Hosting Services
Cytoscape Desktop
RESTful API Module for Cytoscape
Cytoscape Apps
For Data Sharing / Visualization
CyNetShare: A simple web application to share network visualization
Data Files
Annotations
Experimental Data
Networks Style JSON Network / Table JSON
Public Files
Cytoscape Desktop
Cytoscape Apps
Layout Data I/ONetwork Analysis
JSON I/O Module
CyGraphShare
express
Web Browser
Cytoscape.js AngularJS
Data Files
Annotations
Experimental Data
Networks Style JSON Network / Table JSON
Public Files
Cytoscape Desktop
Cytoscape Apps
Layout Data I/ONetwork Analysis
JSON I/O Module
CyGraphShare
express
Web Browser
Cytoscape.js AngularJS
Data Files
Annotations
Experimental Data
Networks Style JSON Network / Table JSON
Public Files
Cytoscape Desktop
Cytoscape Apps
Layout Data I/ONetwork Analysis
JSON I/O Module
CyGraphShare
express
Web Browser
Cytoscape.js AngularJS
Alpha Version Web Site: http://idekerlab.github.io/cy-net-share/
