teaching:progappchim:rdkit

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teaching:progappchim:rdkit [2021/03/03 09:54] villersd
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 +====== RDKit ======
 +  * [[http://www.rdkit.org/]]
 +  * [[http://www.rdkit.org/docs/GettingStartedInPython.html|Getting Started with the RDKit in Python — The RDKit 2020.09.1 documentation]]
 +  * [[https://ctr.fandom.com/wiki/Depict_a_compound_as_an_image#RDKit.2FPython|Depict a compound as an image | Chemistry Toolkit Rosetta Wiki | Fandom]]
 +  * Jupyter & RDKit
 +    * [[https://depth-first.com/articles/2020/08/17/getting-started-rdkit-and-jupyter/|Getting Started with RDKit and Jupyter | Depth-First]]
 +    * [[http://davies-lee.com/index.php/2018/10/06/rdkit-in-jupyter-notebooks/]]
 +  * [[http://www.chemspider.com/|ChemSpider | Search and share chemistry]] site reprenant de nombreuses informations sur des molécules
 +  * ...
 +
 +===== Exemples d'utilisation =====
 +
 +<code python test-rdkit.py>
 +# from http://ctr.wikia.com/wiki/Depict_a_compound_as_an_image
 +from rdkit.Chem import AllChem
 +from rdkit.Chem import Draw
 + 
 +smiles = "CN1C=NC2=C1C(=O)N(C(=O)N2C)C"
 +mol = AllChem.MolFromSmiles(smiles)
 + 
 +# technically this step isn't required since the drawing code
 +# will automatically add a 2D conformation to a molecule that has
 +# no conformation information, I'm including it to show how to
 +# generate 2D coords with the RDKit:
 +AllChem.Compute2DCoords(mol)
 + 
 +Draw.MolToFile(mol,"caffeine.png",size=(200,250))
 +</code>
 +
  
  • teaching/progappchim/rdkit.txt
  • Dernière modification : 2023/05/27 22:54
  • de villersd