# - compatibility with Python 3
from __future__ import print_function  # print('me') instead of print 'me'
from __future__ import division  # 1/2 == 0.5, not 0

# - show figures inside the notebook
%matplotlib inline

# - import common modules
import numpy as np  # the Python array package
import matplotlib.pyplot as plt  # the Python plotting package

# - set gray colormap and nearest neighbor interpolation by default
plt.rcParams['image.cmap'] = 'gray'
plt.rcParams['image.interpolation'] = 'nearest'

The affine in the nifti header.

Reminder about affines and inverses

Reminder about affine transform

Introduction to mutual information

Numpy set_printoptions