Removing Atoms

I would like to  find the largest connected graph in a molecule after removing some atoms. I tried using Molecule.removeAtoms(MolAtom atom)

How do you find whether the remaining atoms are connected or not. I tried Topology Plugin, but it never detects disconnected Molecules. Not sure what the best approach to solve this problem. Thanks.

Can anybody shed some light on this??

Hi,

I've found some suitable methods in the MoleculeCgraph class.

Please try these  ones "getFragCount" and "findFrag".

http://www.chemaxon.com/marvin/help/developer/beans/api/chemaxon/struc/MoleculeGraph.html 

Jozsi