FluxViz

FluxViz visualizes flux distributions on molecular interaction networks to contextualize Flux Balance Analysis (FBA), kinetic modeling results, simulation outputs, and experimentally measured fluxes.

Key Features:

• Format Compatibility: Supports network import in SBML, GML, XGMML, SIF, BioPAX, and PSI-MI formats.
• Flux Distribution Import: Imports flux distributions from CSV files, Cytoscape attributes, or VAL files.
• Customizable Views: Allows focusing views on flux-carrying reactions (flux subnetworks) or on network attributes such as localization.
• Export Options: Exports visualizations in SVG, EPS, PDF, BMP, and PNG formats.

Scientific Applications:

• Metabolic network flux visualization: Visualizes fluxes in metabolic networks and supports analysis of simulation outcomes from FASIMU.
• FBA and kinetic modeling contextualization: Places Flux Balance Analysis (FBA) and kinetic modeling outputs into network topology for interpretation.
• General graph flux visualization: Applies to arbitrary fluxes across diverse graph types and molecular interaction networks beyond biochemical reaction networks.

Methodology:

Implemented as a Cytoscape plug-in for the visualization of flux distributions within molecular interaction networks.