preliminary title

An integrated framework for the protein interaction network: storage, visualization, analysis and deployment

outline

• the architecture of the framework
  • input
  • individual components
  • output
• storage with neo4j database
  • network info: string, kegg (license?)
  • design
  • Command line interface
• visualization with gephi
  • layout: force atlas, rotate, label adjust
  • analysis (also can be done in neo4j, @bornabesic please assess which way is better for running the framework)
    • modularity
    • network diameter: betweenness centrality
• incorporation of gene quantification
  • update in neo4j database
  • visual representation in gephi
• webserver
• deployment with docker container
• a galaxy tool?
• user cases