List of systems biology visualization software

Online software

Name Description Site
GESTALT Workbench graphical workbench for analysis of large-scale genomic sequence data
N-Browse interactive graphical browser for biological networks
NetPath curated resource of human signal transduction pathways
MEGA free, online, open-source, phylogenetic analysis, drawing dendrograms etc.
REACTOME free, online, open-source, curated pathway database encompassing many areas of human biology
WikiPathways curate biological pathways

Applications

Name Description OSLicenseSite
BioTapestry interactive tool for building, visualizing, and simulating genetic regulatory networks multiplatform (Java-based)LGPL
Cytoscape data integration, network visualization, and analysis multiplatform (Java-based)LGPL
GenMAPP visualize and analyze genomic data in the context of pathways WindowsApache License
MEGA free, online, open-source, phylogenetic analysis, drawing dendrograms etc. Windows/DOS-Win/Mac/LinuxShareware
PathVisio tool for displaying and editing biological pathways multiplatform (Java-based)Apache License
InCroMAP tool for the integration of omics data and joint visualization of experimental data in pathways multiplatform (Java-based)LGPL
Pathview pathway based data integration and visualization, easy to use and integrate into pathway analysis multiplatform (R/Bioconductor)GPL
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