Python pandas - filter rows after groupby

python pandas filter lambda group-by

131,024

Solution 1

You just need to use apply on the groupby object. I modified your example data to make this a little more clear:

import pandas
from io import StringIO

csv = StringIO("""index,A,B
0,1,0.0
1,1,3.0
2,1,6.0
3,2,0.0
4,2,5.0
5,2,7.0""")

df = pandas.read_csv(csv, index_col='index')
groups = df.groupby(by=['A'])
print(groups.apply(lambda g: g[g['B'] == g['B'].max()]))

Which prints:

         A  B
A index      
1 2      1  6
2 4      2  7

Solution 2

EDIT: I just learned a much neater way to do this using the .transform group by method:

def get_max_rows(df):
    B_maxes = df.groupby('A').B.transform(max)
    return df[df.B == B_maxes]

B_maxes is a series which identically indexed as the original df containing the maximum value of B for each A group. You can pass lots of functions to the transform method. I think once they have output either as a scalar or vector of the same length. You can even pass some strings as common function names like 'median'. This is slightly different to Paul H's method in that 'A' won't be an index in the result, but you can easily set that after.

import numpy as np
import pandas as pd
df_lots_groups = pd.DataFrame(np.random.rand(30000, 3), columns = list('BCD')
df_lots_groups['A'] = np.random.choice(range(10000), 30000)

%timeit get_max_rows(df_lots_groups)
100 loops, best of 3: 2.86 ms per loop

%timeit df_lots_groups.groupby('A').apply(lambda df: df[ df.B == df.B.max()])
1 loops, best of 3: 5.83 s per loop

EDIT:

Here's a abstraction which allows you to select rows from groups using any valid comparison operator and any valid groupby method:

def get_group_rows(df, group_col, condition_col, func=max, comparison='=='):
    g = df.groupby(group_col)[condition_col]
    condition_limit = g.transform(func)
    df.query('condition_col {} @condition_limit'.format(comparison))

So, for example, if you want all rows in above the median B-value in each A-group you call

get_group_rows(df, 'A', 'B', 'median', '>')

A few examples:

%timeit get_group_rows(df_lots_small_groups, 'A', 'B', 'max', '==')
100 loops, best of 3: 2.84 ms per loop
%timeit get_group_rows(df_lots_small_groups, 'A', 'B', 'mean', '!=')
100 loops, best of 3: 2.97 ms per loop

Solution 3

Here's the other example for : Filtering the rows with maximum value after groupby operation using idxmax() and .loc()

In [465]: import pandas as pd

In [466]:   df = pd.DataFrame({
               'sp' : ['MM1', 'MM1', 'MM1', 'MM2', 'MM2', 'MM2'],
               'mt' : ['S1', 'S1', 'S3', 'S3', 'S4', 'S4'], 
               'value' : [3,2,5,8,10,1]     
                })

In [467]: df
Out[467]: 
   mt   sp  value
0  S1  MM1      3
1  S1  MM1      2
2  S3  MM1      5
3  S3  MM2      8
4  S4  MM2     10
5  S4  MM2      1

### Here, idxmax() finds the indices of the rows with max value within groups,
### and .loc() filters the rows using those indices :
In [468]: df.loc[df.groupby(["mt"])["value"].idxmax()]                                                                                                                           
Out[468]: 
   mt   sp  value
0  S1  MM1      3
3  S3  MM2      8
4  S4  MM2     10

Solution 4

All of these answers are good but I wanted the following:

(DataframeGroupby object) --> filter some rows out --> (DataframeGroupby object)

Shrug, it appears that is harder and more interesting than I expected. So this one liner accomplishes what I wanted but it's probably not the most efficient way :)

gdf.apply(lambda g: g[g['team'] == 'A']).reset_index(drop=True).groupby(gdf.grouper.names)

Working Code Example:

import pandas as pd

def print_groups(gdf): 
    for name, g in gdf: 
        print('\n'+name) 
        print(g)

df = pd.DataFrame({'name': ['sue', 'jim', 'ted', 'moe'],
                   'team': ['A', 'A', 'B', 'B'], 
                   'fav_food': ['tacos', 'steak', 'tacos', 'steak']})                               

gdf = df.groupby('fav_food')                                                                                                                                           
print_groups(gdf)                                                                                                                                                      

    steak
        name team fav_food
    1  jim    A    steak
    3  moe    B    steak

    tacos
        name team fav_food
    0  sue    A    tacos
    2  ted    B    tacos

fgdf = gdf.apply(lambda g: g[g['team'] == 'A']).reset_index(drop=True).groupby(gdf.grouper.names)                                                                      
print_groups(fgdf)                                                                                                                                                     

    steak
      name team fav_food
    0  jim    A    steak

    tacos
      name team fav_food
    1  sue    A    tacos

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131,024

Author by

jirinovo

Doing PhD. at in bioinformatics at Laboratory of Genomics and Bioinformatics at Institute of Molecular Genetics of the Czech Academy of Sciences / University of Chemical Technology in Prague

Updated on October 02, 2021

Comments

jirinovo over 2 years
For example I have following table:
```
index,A,B
0,0,0
1,0,8
2,0,8
3,1,0
4,1,5
```
After grouping by A:
```
0:
index,A,B
0,0,0
1,0,8
2,0,8

1:
index,A,B
3,1,5
4,1,3
```
What I need is to drop rows from each group, where the number in column B is less than maximum value from all rows from group's column B. Well I have a problem translating and formulating this problem to English so here is the example:

Maximum value from rows in column B in group 0: 8

So I want to drop row with index 0 and keep rows with indexes 1 and 2

Maximum value from rows in column B in group 1: 5

So I want to drop row with index 4 and keep row with index 3

I have tried to use pandas filter function, but the problem is that it is operating on all rows in group at one time:
```
data = <example table>
grouped = data.groupby("A")
filtered = grouped.filter(lambda x: x["B"] == x["B"].max())
```
So what I ideally need is some filter, which iterates through all rows in group.

Thanks for help!

P.S. Is there also way to only delete rows in groups and do not return DataFrame object?
jirinovo over 9 years

Thanks, it works fine. Can I just ask you, what does apply() specifically do? And I am a little bit confused with g[g['B']
Paul H over 9 years

@jirinovo groupby.apply(function) runs every single group through that function and concatenates all of the results. g[...] is fancy/boolean indexing -- meaning that it only returns rows where that inner condition is true. In this case, the condition is g['B'] == g['B'].max(), e.g., all the rows where the value in column B is equal to the largest value of B within that group.
jirinovo over 9 years

Wow I didn't know about such a thing like boolean indexing - it's really cool! Thanks.
mccc over 8 years

I had to cut down on coffee because of how the pandas documentation made my blood pressure shoot up... May I ask where you learned about this thing? Also, allow me to link to the transform() doc page
JoeCondron over 8 years

I love Pandas but the docs, error messages and testing leave something to be desired. I don't remember where I first saw transform in use but I'm pretty sure it was here on SO. I often find novel ways of solving problems by looking at questions & answers here. If you use ipython notebook you can use tab completion to scan through the various methods, read the docstrings (not great, I know) and just experiment with them (in this case create a group by object and scan its methods)
Paul H about 8 years

@mccc you need to look at the human-written docs and not the auto-generated references: pandas.pydata.org/pandas-docs/stable/…
Anonymous almost 5 years

Would this also work without an aggregation function like max, mean, ...? So for example, if I only want to return the rows of groups where 'some_column == 1'?
John Stud over 4 years

This is really great; any idea how we can apply multiple filter conditions to this?
JoeCondron over 4 years

Not sure exactly what you mean by multiple conditions. My naive answer is that you would generate a Boolean vector for each and chain them with &. Can you provide an example?
bibscy almost 4 years

Is there any reason why everyone hates semantic names for variables when you write code in Python? What's the meaning of g. What's the meaning of fgdf ?
MasayoMusic almost 4 years

@bibscy g is for grouped (I think). Usually grouped is used though. df is widely used as dataframe. fgdf = final grouped dataframe ( I presume)
gustafbstrom almost 4 years

Thanks. I personally find it misleading that the filter function doesn't filter rows based on some criterion. It feels like the obvious behavior.
Paul H almost 4 years

@gustafbstrom OK