Difference between revisions of "Cytoscape"

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==System Variables==
==System Variables==
* HPC_{{#uppercase:{{#var:app}}}}_DIR - installation directory
* HPC_{{uc:{{#var:app}}}}_DIR - installation directory
{{#if: {{#var: conf}}|==Configuration==
{{#if: {{#var: conf}}|==Configuration==

Revision as of 21:17, 6 December 2019


cytoscape website  

Cytoscape is an open source software platform for visualizing molecular interaction networks and biological pathways and integrating these networks with annotations, gene expression profiles and other state data. Although Cytoscape was originally designed for biological research, now it is a general platform for complex network analysis and visualization. Cytoscape core distribution provides a basic set of features for data integration, analysis, and visualization.

Required Modules

System Variables

  • HPC_CYTOSCAPE_DIR - installation directory

Additional Information

This is a GUI software. Follow the instructions at https://wiki.rc.ufl.edu/doc/GUI_Programs

Basic usage:

module load gui cytoscape
launch_gui_session -e Cytoscape

Connect with xpra locally using the xpra command

xpra attach ssh:jdoe@i111a-s222.rc.ufl.edu:3713