Reshaping dataframes in pandas based on column labels
I'm assuming you already have the DataFrame. In which case you can just turn the columns into a MultiIndex and use stack then reset_index. Note that you'll then have to rename and reorder the columns and sort by sample to get exactly what you posted in the question:
In [4]: df = pandas.DataFrame({"s1_x": scipy.randn(10), "s1_y": scipy.randn(10), "s2_x": scipy.randn(10), "s2_y": scipy.randn(10)})
In [5]: df.columns = pandas.MultiIndex.from_tuples([tuple(c.split('_')) for c in df.columns])
In [6]: df.stack(0).reset_index(1)
Out[6]:
level_1 x y
0 s1 0.897994 -0.278357
0 s2 -0.008126 -1.701865
1 s1 -1.354633 -0.890960
1 s2 -0.773428 0.003501
2 s1 -1.499422 -1.518993
2 s2 0.240226 1.773427
3 s1 -1.090921 0.847064
3 s2 -1.061303 1.557871
4 s1 -1.697340 -0.160952
4 s2 -0.930642 0.182060
5 s1 -0.356076 -0.661811
5 s2 0.539875 -1.033523
6 s1 -0.687861 -1.450762
6 s2 0.700193 0.658959
7 s1 -0.130422 -0.826465
7 s2 -0.423473 -1.281856
8 s1 0.306983 0.433856
8 s2 0.097279 -0.256159
9 s1 0.498057 0.147243
9 s2 1.312578 0.111837
You can save the MultiIndex conversion if you can just create the DataFrame with a MultiIndex instead.
Edit: use merge to join original ids back in
In [59]: df
Out[59]:
names s1_x s1_y s2_x s2_y
0 0 0.732099 0.018387 0.299856 0.737142
1 1 0.914755 -0.798159 -0.732868 -1.279311
2 2 -1.063558 0.161779 -0.115751 -0.251157
3 3 -1.185501 0.095147 -1.343139 -0.003084
4 4 0.622400 -0.299726 0.198710 -0.383060
5 5 0.179318 0.066029 -0.635507 1.366786
6 6 -0.820099 0.066067 1.113402 0.002872
7 7 0.711627 -0.182925 1.391194 -2.788434
8 8 -1.124092 1.303375 0.202691 -0.225993
9 9 -0.179026 0.847466 -1.480708 -0.497067
In [60]: id = df.ix[:, ['names']]
In [61]: df.columns = pandas.MultiIndex.from_tuples([tuple(c.split('_')) for c in df.columns])
In [62]: pandas.merge(df.stack(0).reset_index(1), id, left_index=True, right_index=True)
Out[62]:
level_1 x y names
0 s1 0.732099 0.018387 0
0 s2 0.299856 0.737142 0
1 s1 0.914755 -0.798159 1
1 s2 -0.732868 -1.279311 1
2 s1 -1.063558 0.161779 2
2 s2 -0.115751 -0.251157 2
3 s1 -1.185501 0.095147 3
3 s2 -1.343139 -0.003084 3
4 s1 0.622400 -0.299726 4
4 s2 0.198710 -0.383060 4
5 s1 0.179318 0.066029 5
5 s2 -0.635507 1.366786 5
6 s1 -0.820099 0.066067 6
6 s2 1.113402 0.002872 6
7 s1 0.711627 -0.182925 7
7 s2 1.391194 -2.788434 7
8 s1 -1.124092 1.303375 8
8 s2 0.202691 -0.225993 8
9 s1 -0.179026 0.847466 9
9 s2 -1.480708 -0.497067 9
Alternatively:
In [64]: df
Out[64]:
names s1_x s1_y s2_x s2_y
0 0 0.744742 -1.123403 0.212736 0.005440
1 1 0.465075 -0.673491 1.467156 -0.176298
2 2 -1.111566 0.168043 -0.102142 -1.072461
3 3 1.226537 -1.147357 -1.583762 -1.236582
4 4 1.137675 0.224422 0.738988 1.528416
5 5 -0.237014 -1.110303 -0.770221 1.389714
6 6 -0.659213 2.305374 -0.326253 1.416778
7 7 1.524214 -0.395451 -1.884197 0.524606
8 8 0.375112 -0.622555 0.295336 0.927208
9 9 1.168386 -0.291899 -1.462098 0.250889
In [65]: df = df.set_index('names')
In [66]: df.columns = pandas.MultiIndex.from_tuples([tuple(c.split('_')) for c in df.columns])
In [67]: df.stack(0).reset_index(1)
Out[67]:
level_1 x y
names
0 s1 0.744742 -1.123403
0 s2 0.212736 0.005440
1 s1 0.465075 -0.673491
1 s2 1.467156 -0.176298
2 s1 -1.111566 0.168043
2 s2 -0.102142 -1.072461
3 s1 1.226537 -1.147357
3 s2 -1.583762 -1.236582
4 s1 1.137675 0.224422
4 s2 0.738988 1.528416
5 s1 -0.237014 -1.110303
5 s2 -0.770221 1.389714
6 s1 -0.659213 2.305374
6 s2 -0.326253 1.416778
7 s1 1.524214 -0.395451
7 s2 -1.884197 0.524606
8 s1 0.375112 -0.622555
8 s2 0.295336 0.927208
9 s1 1.168386 -0.291899
9 s2 -1.462098 0.250889
Admin
Updated on June 05, 2022Comments
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Admin almost 2 years
What is the best way to reshape the following dataframe in pandas? This DataFrame
df
hasx,y
values for each sample (s1
ands2
in this case) and looks like this:In [23]: df = pandas.DataFrame({"s1_x": scipy.randn(10), "s1_y": scipy.randn(10), "s2_x": scipy.randn(10), "s2_y": scipy.randn(10)}) In [24]: df Out[24]: s1_x s1_y s2_x s2_y 0 0.913462 0.525590 -0.377640 0.700720 1 0.723288 -0.691715 0.127153 0.180836 2 0.181631 -1.090529 -1.392552 1.530669 3 0.997414 -1.486094 1.207012 0.376120 4 -0.319841 0.195289 -1.034683 0.286073 5 1.085154 -0.619635 0.396867 0.623482 6 1.867816 -0.928101 -0.491929 -0.955295 7 0.920658 -1.132057 1.701582 -0.110299 8 -0.241853 -0.129702 -0.809852 0.014802 9 -0.019523 -0.578930 0.803688 -0.881875
s1_x
ands1_y
are the x/y values for sample 1,s2_x, s2_y
are the sample values for sample 2, etc. How can this be reshaped into a DataFrame containing onlyx
,y
columns but that contains an additional columnsample
that says for each row in the DataFrame whether it's froms1
ors2
? E.g.x y sample 0 0.913462 0.525590 s1 1 0.723288 -0.691715 s1 2 0.181631 -1.090529 s1 3 0.997414 -1.486094 s1 ... 5 0.396867 0.623482 s2 ...
This is useful for plotting things with Rpy2 later on, since many R plotting features can make use of this grouping variable, so that's my motivation for reshaping the dataframe.
I think the answer given by Chang She doesn't translate to dataframes that have a unique index, like this one:
In [636]: df = pandas.DataFrame({"s1_x": scipy.randn(10), "s1_y": scipy.randn(10), "s2_x": scipy.randn(10), "s2_y": scipy.randn(10), "names": range(10)}) In [637]: df Out[637]: names s1_x s1_y s2_x s2_y 0 0 0.672298 0.415366 1.034770 0.556209 1 1 0.067087 -0.851028 0.053608 -0.276461 2 2 -0.674174 -0.099015 0.864148 -0.067240 3 3 0.542996 -0.813018 2.283530 2.793727 4 4 0.216633 -0.091870 -0.746411 -0.421852 5 5 0.141301 -1.537721 -0.371601 -1.594634 6 6 1.267148 -0.833120 0.369516 -0.671627 7 7 -0.231163 -0.557398 1.123155 0.865140 8 8 1.790570 -0.428563 0.668987 0.632409 9 9 -0.820315 -0.894855 0.673247 -1.195831 In [638]: df.columns = pandas.MultiIndex.from_tuples([tuple(c.split('_')) for c in df.columns]) In [639]: df.stack(0).reset_index(1) Out[639]: level_1 x y 0 s1 0.672298 0.415366 0 s2 1.034770 0.556209 1 s1 0.067087 -0.851028 1 s2 0.053608 -0.276461 2 s1 -0.674174 -0.099015 2 s2 0.864148 -0.067240 3 s1 0.542996 -0.813018 3 s2 2.283530 2.793727 4 s1 0.216633 -0.091870 4 s2 -0.746411 -0.421852 5 s1 0.141301 -1.537721 5 s2 -0.371601 -1.594634 6 s1 1.267148 -0.833120 6 s2 0.369516 -0.671627 7 s1 -0.231163 -0.557398 7 s2 1.123155 0.865140 8 s1 1.790570 -0.428563 8 s2 0.668987 0.632409 9 s1 -0.820315 -0.894855 9 s2 0.673247 -1.195831
The transformation worked but in the process the column
"names"
was lost. How can I keep the"names"
column in the df while still doing the melting transformation on the columns that have_
in their names? The"names"
column just assigns a unique name to each row in the dataframe. It's numeric here for example but in my data they are string identifiers.thanks.
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Admin about 11 yearsCould you explain the
reset_index
call and what it is doing here? Also, is it possible to get rid of thelevel_1
index? I also don't see how I can access the labels columns for each row using this -
Chang She about 11 yearsAfter the call to stack, "s1 s2 s1 s2 ..." is part of the row labels (index). reset_index simply makes it a column instead. After this it's still a DataFrame so index/columns access is still the same.
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Admin about 11 yearsI modified my question to reflect a problem with this solution for uniquely indexed dataframes. Do you have an idea of how this solution could be adapted to those? thank you
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Chang She about 11 yearsIf that's the case, use merge or set the name to be the index to begin with. I'm updating the solution with this