How to convert string including an array into an array in python?

Question

I am working on an assignment of bioinfo.

I have converted from SMILES to the fingerprints(fp) for a group of molecules, and the data frame looks like this:

The type of fingerprint is:

Then save the file to CSV file with to_csv .

Then reading the file with pd.read_csv , the fingerprint changes into a string and looks like:

I replace the \n with empty space, , but the type is still a string.

I have used various methods:

1. ast.literal_eval(fp_df['fp']) , then there is error: ValueError: malformed node or string: , from the most upvoted answer here
2. list(fp_df['fp']) can't change the type of string
3. [n.strip() for n in x] doesn't work:

And other methods have also been tried.

May I ask for your help on how to deal with it? Thanks in advance.

Answer 1

If your value looks like:

"[1 0 0 1 1 0]"

Then you can turn it into a list by:

values = value.lstrip("[").rstrip("]").split()

But the values will still be numeric strings, so you could cast to int by:

values = [int(n) for n in value.lstrip("[").rstrip("]").split()]