Dear Evgueni,

On Wed, Oct 21, 2009 at 3:25 PM, Evgueni Kolossov <ekolos...@gmail.com> wrote:
>
> I do not quite understand how SubstructMatch function works - what will be
> in vector matchVect which is <int, int> vector? is it Atomic matches?

It's a vector with information about the match:
 atom id in query : atom id in matched molecule

> What is the simplest way to find substructures/superstructures/exact match
> of query structure in the set of molecules?

substructure: use SubstructMatch(mol,query,...)
superstructure: use SubstructMatch(query,mol,...)
exact match: use canonical SMILES

-greg



-greg

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