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RDKit nodes for knime

Landrum, Gregory, Palmer, Andrew, Davies, John and Berthold, Michael (2010) RDKit nodes for knime. Knime community website.

Official URL:


This contribution is the source code for a Java implementation of a number of cheminformatics nodes for the open-source workflow tool Knime ( The nodes are implemented using the RDKit, an open-source cheminformatics toolkit ( that NIBR has
previously published source code for (OAK IDs 3157 and 1969, five pre-OAK submissions). The Knime nodes will be distributed using the same open-source license as Knime itself - the Gnu Public License (GPL) v3 - and will be published on a website hosted at

The Knime nodes in this submission are:
1) RDKit Canon Smiles: generate canonical smilees
2) RDKit Substructure Filter: do a substructure filtering using a
SMARTS pattern
3) RDKit To Mol Converter: Convert a SMILES column into an RDKit molecule column
4) RDKit Fingerprint : generate fingerprints for molecules using a number of standard RDKit algorithms.
5) RDKit One Component Reaction: apply a chemical reaction to a single reactant table.
6) RDKit Two Component Reaction: apply a chemical reaction to two reactant tables.

These nodes were implemented as part of the Cheminformatics Initiative.

Item Type: Article
Date Deposited: 13 Oct 2015 13:15
Last Modified: 13 Oct 2015 13:15


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