Re: [Rdkit-discuss] Understanding Pharm2D

2009-12-02 Thread Greg Landrum
Dear Markus, I've updated the Getting Started In Python book to include a bit of information about building and using 2D pharmacophore fingerprints in the RDKit. The new document and PDF are in svn. -greg -- Join us Dece

Re: [Rdkit-discuss] Understanding Pharm2D

2009-11-20 Thread Greg Landrum
Hi Markus, At the moment there's not really any documentation for the Pharm2D code that's particularly useful. There is some sample code for generating fingerprints in $RDBASE/rdkit/Chem/MolDb/FingerprintUtils.py, but it's not particularly explanatory. There are a couple of pictures how bit ids a

[Rdkit-discuss] Understanding Pharm2D

2009-11-20 Thread Markus Kossner
Hi Greg, I am currently working my way through the Pharm2D Modules and have some Questions: 1.) A '2DPharmacophore' is the non-hashed bitstring as described in the Gobbi Paper cited in the doc files isn't it? 2.)Does rdkit.Chem.Pharm2D.Generate.Gen2DFingerprint yield the hashed version descr