Re: [Rdkit-discuss] 3D-Pharmacophore fingerprints ?

2014-05-02 Thread Stephen O'hagan
Hi Greg, Should that be : dm = Chem.GetDistanceMatrix(mol) I can find no Get3DDistanceMatrix defined? For a list of molecules, do we recalculate the dm for each one, or do we use one molecule’s dm as a ‘reference’? Without trawling through the source code, I’m not clear what’s actually being

Re: [Rdkit-discuss] 3D-Pharmacophore fingerprints ?

2014-05-02 Thread Greg Landrum
On Fri, May 2, 2014 at 3:52 PM, Stephen O'hagan soha...@manchester.ac.ukwrote: Hi Greg, Should that be : dm = Chem.GetDistanceMatrix(mol) nope, that's the 2D (topological) distance matrix that is generated by default. I can find no Get3DDistanceMatrix defined? It is,