Where does drugbank.tsv and pubchem.tsv comes from ?

[iDemirsoy]

Not an issue but a question.
I am not sure how/where you downloaded drugbank.tsv and pubchem.tsv files?
Thanks!

[dhimmel]

Are you referring to the following in SIDER4.ipynb:

# Read DrugBank terms
url = 'https://raw.githubusercontent.com/dhimmel/drugbank/3e87872db5fca5ac427ce27464ab945c0ceb4ec6/data/drugbank.tsv'
drugbank_df = pandas.read_table(url)[['drugbank_id', 'name']].rename(columns={'name': 'drugbank_name'})

# Pubchem to DrugBank mapping
url = 'https://raw.githubusercontent.com/dhimmel/drugbank/3e87872db5fca5ac427ce27464ab945c0ceb4ec6/data/mapping/pubchem.tsv'
drugbank_map_df = pandas.read_table(url)

Those datasets are downloaded from those URLs, which refer to datasets hosted on GitHub. If you would like the non-raw view of those files, you can go to the following URLs:

• https://github.com/dhimmel/drugbank/blob/3e87872db5fca5ac427ce27464ab945c0ceb4ec6/data/drugbank.tsv
• https://github.com/dhimmel/drugbank/blob/3e87872db5fca5ac427ce27464ab945c0ceb4ec6/data/mapping/pubchem.tsv