Vernalis Chemistry Matched-Molecular Pairs extension for KNIME Workbench version 1.30.2.v202106181332 by Vernalis (R&D), UK
This node implements the Hussain and Rea algorithm for finding Matched Molecular Pairs in a dataset. The node takes an input table of fragments generated by the MMP Molecule Fragment nodes and generates an output table of matched molecular pairs (MMPs)
The node requires two SMILES input columns, representing the 'key' (unchanging atoms) and 'value', and a string column containing the ID. The node will attempt to auto-guess these column selections based on the default names for the columns output by the fragment node.
The input table can contain fragmentations from differing numbers of cuts, in which case this will be reflected in the output table.
The table will be pre-sorted by key followed by value during execution, unless the 'Incoming table is sorted by Keys and Values?' option is selected. If this option is selected and correct sorting is not applied, then pairs may be missed (incorrect keys sorting) or non-canonical in their direction (incorrect values sorting)
Incoming columns can be passed through unchanged (Left, Right or both), numeric columns (Integer, Long, Double and Complex Number) can have differences (L - R or R - L) and ratios (Double only) calculated (L / R or R / L)
Transforms can be filtered based on the Value Attachment point graph distance calculated during fragmentation using a number of options
1.J. Hussain and C Rea, " Computationally efficient algorithm to identify matched molecular pairs (MMPs) in large datasets ", J. Chem. Inf. Model. , 2010, 50 , 339-348 (DOI: 10.1021/ci900450m ).
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