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] |