Visualisation of atom groups in molecular graphs with eXamol (based on the eXamine engine).
Apache Maven is required to compile the code via:
mvn install
java -jar examines.jar
Fig 1: Taxol - Skeletal Structure Formula
Fig 2: Taxol - Skeletal Structure Formula
"eXamine is a Cytoscape app for a set-oriented visual analysis approach for annotated modules that displays set membership as contours on top of a node-link layout."
BMC Bioinformatics. 2014 Jul 10;15:201. doi: 10.1186/1471-2105-15-201.
Dinkla K, El-Kebir M, Bucur CI, Siderius M, Smit MJ, Westenberg MA1, Klau GW.