In Pandas, how to delete rows from a Data Frame based on another Data Frame?

You can use boolean indexing and condition with isin, inverting boolean Series is by ~:

import pandas as pd

USERS = pd.DataFrame({'email':['[email protected]','[email protected]','[email protected]','[email protected]','[email protected]']})
print (USERS)
     email
0  [email protected]
1  [email protected]
2  [email protected]
3  [email protected]
4  [email protected]

EXCLUDE = pd.DataFrame({'email':['[email protected]','[email protected]']})
print (EXCLUDE)
     email
0  [email protected]
1  [email protected]
print (USERS.email.isin(EXCLUDE.email))
0     True
1    False
2    False
3    False
4     True
Name: email, dtype: bool

print (~USERS.email.isin(EXCLUDE.email))
0    False
1     True
2     True
3     True
4    False
Name: email, dtype: bool

print (USERS[~USERS.email.isin(EXCLUDE.email)])
     email
1  [email protected]
2  [email protected]
3  [email protected]

Another solution with merge:

df = pd.merge(USERS, EXCLUDE, how='outer', indicator=True)
print (df)
     email     _merge
0  [email protected]       both
1  [email protected]  left_only
2  [email protected]  left_only
3  [email protected]  left_only
4  [email protected]       both

print (df.loc[df._merge == 'left_only', ['email']])
     email
1  [email protected]
2  [email protected]
3  [email protected]

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