Drop rows with all zeros in pandas data frame

Question

I can use pandas dropna() functionality to remove rows with some or all columns set as NA\'s. Is there an equivalent function for drop

Answer 1

It turns out this can be nicely expressed in a vectorized fashion:

> df = pd.DataFrame({'a':[0,0,1,1], 'b':[0,1,0,1]})
> df = df[(df.T != 0).any()]
> df
   a  b
1  0  1
2  1  0
3  1  1

Answer 2

Another alternative:

# Is there anything in this row non-zero?
# df != 0 --> which entries are non-zero? T/F
# (df != 0).any(axis=1) --> are there 'any' entries non-zero row-wise? T/F of rows that return true to this statement.
# df.loc[all_zero_mask,:] --> mask your rows to only show the rows which contained a non-zero entry.
# df.shape to confirm a subset.

all_zero_mask=(df != 0).any(axis=1) # Is there anything in this row non-zero?
df.loc[all_zero_mask,:].shape

Answer 3

Couple of solutions I found to be helpful while looking this up, especially for larger data sets:

df[(df.sum(axis=1) != 0)]       # 30% faster 
df[df.values.sum(axis=1) != 0]  # 3X faster 

Continuing with the example from @U2EF1:

In [88]: df = pd.DataFrame({'a':[0,0,1,1], 'b':[0,1,0,1]})

In [91]: %timeit df[(df.T != 0).any()]
1000 loops, best of 3: 686 µs per loop

In [92]: df[(df.sum(axis=1) != 0)]
Out[92]: 
   a  b
1  0  1
2  1  0
3  1  1

In [95]: %timeit df[(df.sum(axis=1) != 0)]
1000 loops, best of 3: 495 µs per loop

In [96]: %timeit df[df.values.sum(axis=1) != 0]
1000 loops, best of 3: 217 µs per loop

On a larger dataset:

In [119]: bdf = pd.DataFrame(np.random.randint(0,2,size=(10000,4)))

In [120]: %timeit bdf[(bdf.T != 0).any()]
1000 loops, best of 3: 1.63 ms per loop

In [121]: %timeit bdf[(bdf.sum(axis=1) != 0)]
1000 loops, best of 3: 1.09 ms per loop

In [122]: %timeit bdf[bdf.values.sum(axis=1) != 0]
1000 loops, best of 3: 517 µs per loop

Answer 4

You can use a quick lambda function to check if all the values in a given row are 0. Then you can use the result of applying that lambda as a way to choose only the rows that match or don't match that condition:

import pandas as pd
import numpy as np

np.random.seed(0)

df = pd.DataFrame(np.random.randn(5,3), 
                  index=['one', 'two', 'three', 'four', 'five'],
                  columns=list('abc'))

df.loc[['one', 'three']] = 0

print df
print df.loc[~df.apply(lambda row: (row==0).all(), axis=1)]

Yields:

              a         b         c
one    0.000000  0.000000  0.000000
two    2.240893  1.867558 -0.977278
three  0.000000  0.000000  0.000000
four   0.410599  0.144044  1.454274
five   0.761038  0.121675  0.443863

[5 rows x 3 columns]
             a         b         c
two   2.240893  1.867558 -0.977278
four  0.410599  0.144044  1.454274
five  0.761038  0.121675  0.443863

[3 rows x 3 columns]

Answer 5

To drop all columns with values 0 in any row:

new_df = df[df.loc[:]!=0].dropna()

Answer 6

I look up this question about once a month and always have to dig out the best answer from the comments:

df.loc[(df!=0).any(1)]

Thanks Dan Allan!