Pathway Visualization Tools List
| Tool Name |
Free or Not |
Support Formats |
Download URL |
| BiologicalNetworks |
free |
SBML |
http://biologicalnetworks.org/Software/index.php |
| Cytoscape |
free |
PSI-MI,BioPAX,SBML |
http://www.cytoscape.org/download.php?file=cyto2_7_0 |
| ProViz |
free |
PSI-MI |
http://cbi.labri.fr/eng/proviz.htm |
| BiNoM |
free |
BioPAX,SBML |
http://bioinfo-out.curie.fr/projects/binom/ |
| VANTED |
free |
KGML |
http://vanted.ipk-gatersleben.de/ |
| CellDesigner |
free |
SBML |
http://www.celldesigner.org/download.html |
| JDesigner |
free |
SBML |
http://www.sys-bio.org/sbwWiki/sysbio/jdesigner |
| KEGG Atlas |
free |
KGML |
http://www.genome.jp/kegg/atlas.html |
| Omics Viewer |
free |
BioPAX,SBML |
http://bioinformatics.ai.sri.com/ptools/ |
| Payaologue |
free |
SBML |
http://celldesigner.org/payao/ |
| Reactome SkyPainter |
free |
BioPAX,SBML |
http://reactome.org/cgi-bin/skypainter2?DB=gk_current |
| BioLayout Express3D |
free |
SBML |
http://www.biolayout.org/ |
| PATIKA |
free |
BioPAX,SBML |
http://www.patika.org/software/ |
| SPIKE |
free |
BioPAX |
http://www.cs.tau.ac.il/~spike/ |
| FUNGIpath |
free |
BioPAX,KGML |
http://embg.igmors.u-psud.fr/fungipath/ |
| KA-SB |
free |
BioPAX |
http://khaos.uma.es/KA-SB |
| cPath |
free |
PSI-MI,BioPAX,SBML |
http://cbio.mskcc.org/dev_site/cpath/ |
| RDFScape |
free |
BioPax |
http://bioinformatics.org/rdfscape/ |
| VisANT |
free |
PSI-MI,BioPAX,KGML |
http://visant.bu.edu/ |
| Gaggle |
free |
BioPAX,SBML |
http://gaggle.systemsbiology.org/ |
| GraphWeb |
free |
BioPAX |
http://biit.cs.ut.ee/graphweb |
| AVIS |
free |
PSI-MI,BioPAX |
http://actin.pharm.mssm.edu/AVIS2 |
| GenoLink |
free |
PSI-MI |
http://www.genostar.org |
| KEGGconverter |
free |
SBML,KGML |
http://www.grissom.gr/keggconverter |
| SBML-SAT |
free |
SBML |
http://sysbio.molgen.mpg.de/SBML-SAT |
| Protopia |
free |
SBML |
http://asp.uma.es/Protopia/index.jsp |
| FBA-SimVis |
free |
SBML |
http://fbasimvis.ipk-gatersleben.de/ |
| FERN |
free |
SBML |
http://www.bio.ifi.lmu.de/FERN/ |
| YANA |
free |
SBML |
http://yana.bioapps.biozentrum.uni-wuerzburg.de |
| CycSim |
free |
SBML |
http://www.genoscope.cns.fr/cycsim |
| MetaRoute |
free |
SBML |
http://www-bs.informatik.uni-tuebingen.de/Services/MetaRoute |
| ComPath |
free |
KGML |
http://compath.informatics.indiana.edu/cgi-bin/platcom/ComPath/Programs/compath_home.cgi |
| KGML-ED |
free |
KGML |
http://kgml-ed.ipk-gatersleben.de |