Get DrugBank data with Python
1 answer
Hi, you can use dbparser package https://github.com/Dainanahan/dbparser, it is designed to parse DrugBank database and return R dataframes. The generated dataframes are avaiable in https://dainanahan.github.io/dbdataset/.
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Let's consider this Drugbank.
https://www.drugbank.ca/
There is a comprehensive guide below how to do a lot of things manually:
https://www.drugbank.ca/help
Below there is some python scripts as an artenative:
https://github.com/macarthur-lab/gene_lists
Look through the page, you will find some python script-links, for example:
https://github.com/macarthur-lab/gene_lists/blob/master/src/drug_targets.py
There are a lot of databases that provide similar information:
http://www.cureffi.org/2013/10/04/list-of-fda-approved-drugs-and-cns-drugs-with-smiles/
See this link as well: Downloading and extracting DrugBank data using R
WIKI is not a bad source of some information:
https://en.wikipedia.org/wiki/DrugBank