Numpy extract submatrix

Give np.ix_ a try:

Y[np.ix_([0,3],[0,3])]

This returns your desired result:

In [25]: Y = np.arange(16).reshape(4,4)
In [26]: Y[np.ix_([0,3],[0,3])]
Out[26]:
array([[ 0,  3],
       [12, 15]])

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