List of systems biology visualization software
Online software
| Name
|
Description |
Site
|
| GESTALT Workbench
|
graphical workbench for analysis of large-scale genomic sequence data
|
[1]
|
| N-Browse
|
interactive graphical browser for biological networks
|
[2]
|
| NetPath
|
curated resource of human signal transduction pathways
|
[3]
|
| MEGA
|
free, online, open-source, phylogenetic analysis, drawing dendrograms etc.
|
[4]
|
| REACTOME
|
free, online, open-source, curated pathway database encompassing many areas of human biology
|
[5]
|
| WikiPathways
|
curate biological pathways
|
[6]
|
| MetaboMAPS
|
visualize omics data on shared metabolic pathways [1]
|
[7]
|
Applications
| Name
|
Description |
OS |
License |
Site
|
| BioTapestry
|
interactive tool for building, visualizing, and simulating genetic regulatory networks
|
multiplatform (Java-based) |
LGPL |
[8]
|
| Cytoscape
|
data integration, network visualization, and analysis
|
multiplatform (Java-based) |
LGPL |
[9]
|
| GenMAPP
|
visualize and analyze genomic data in the context of pathways
|
Windows |
Apache License |
[10]
|
| MATLAB
|
tool for modeling, simulating, and analyzing dynamic biological systems
|
Windows, Linux, macOS
|
Proprietary
|
[11]
|
| MEGA
|
free, online, open-source, phylogenetic analysis, drawing dendrograms etc.
|
Windows/DOS-Win/Mac/Linux |
Shareware |
[12]
|
| PathVisio
|
tool for displaying and editing biological pathways
|
multiplatform (Java-based) |
Apache License |
[13]
|
| InCroMAP
|
tool for the integration of omics data and joint visualization of experimental data in pathways
|
multiplatform (Java-based) |
LGPL |
[14]
|
| Pathview
|
pathway based data integration and visualization, easy to use and integrate into pathway analysis
|
multiplatform (R/Bioconductor) |
GPL |
[15] [16]
|
| SBMLDiagrams[2]
|
Python API to display and edit SBML layout/render extension |
multiplatform |
MIT |
[17]
|
| Systrip
|
analysis of time-series data in the context of biological networks
|
Windows, Linux |
LGPL, GPL |
[18]
|
References
|
