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 MetaboMAPS visualize omics data on shared metabolic pathways
Applications Name Description OSLicenseSite BioTapestry interactive tool for building, visualizing, and simulating genetic regulatory networksmultiplatform (Java-based)LGPL Cytoscape data integration, network visualization, and analysismultiplatform (Java-based)LGPL GenMAPP visualize and analyze genomic data in the context of pathwaysWindowsApache LicenseMATLABtool for modeling, simulating, and analyzing dynamic biological systemsWindows, Linux, macOSProprietary MEGA free, online, open-source, phylogenetic analysis, drawing dendrograms etc.Windows/DOS-Win/Mac/LinuxShareware PathVisio tool for displaying and editing biological pathwaysmultiplatform (Java-based)Apache License InCroMAP tool for the integration of omics data and joint visualization of experimental data in pathwaysmultiplatform (Java-based)LGPL Pathview pathway based data integration and visualization, easy to use and integrate into pathway analysismultiplatform (R/Bioconductor)GPL SBMLDiagrams Python API to display and edit SBML layout/render extension multiplatform MIT Systrip analysis of time-series data in the context of biological networksWindows, LinuxLGPL, GPL
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