generate.2d.coordinates

Some file formats such as SMILES do not support 2D (or 3D) coordinates
for the atoms. Other formats such as SD or MOL have support for coordinates
but may not include them. This method will generate reasonable 2D coordinates 
based purely on connectivity information, overwriting
any existing coordinates if present.

Allows the user to access functionality in the
'CDK', a Java framework for chemoinformatics. This allows the user to load
molecules, evaluate fingerprints, calculate molecular descriptors and so on.
In addition, the 'CDK' API allows the user to view structures in 2D.

Zachary CharlopPowers

rcdk

Interface to the 'CDK' Libraries

Rajarshi Guha

Zachary Charlop-Powers

Emma Schymanski

generate.2d.coordinates function

<dl><dt>mol</dt>
<dd>The molecule to query. Should be a `jobjRef` representing an `IAtomContainer`</dd></dl>

Arguments

Rajarshi Guha (<a href="/link/rajarshi.guha%40gmail.com?package=rcdk&version=3.8.1" data-mini-rdoc="rcdk::rajarshi.guha@gmail.com">rajarshi.guha@gmail.com</a>)

Author

Generate 2D coordinates for a molecule. — generate.2d.coordinates

<dl>

<dt>mol</dt>
<dd>The molecule to query. Should be a `jobjRef` representing an `IAtomContainer`</dd>

</dl>

Rajarshi Guha (<a href='mailto:rajarshi.guha@gmail.com'>rajarshi.guha@gmail.com</a>)

generate.2d.coordinates: Generate 2D coordinates for a molecule.

Description

Usage

Value

Arguments

Author

Details

See Also