HowTo_Matplotlib.md

How to: Matplotlib

• Import

  import matplotlib.pyplot as plt
  

• Figure size

  plt.rcParams['figure.figsize'] = [figureWidth, figLength] # figsize=() seems to be ineffective on notebooks
  fig     = plt.figure() 
  

• Subplot

  
  fig.tight_layout() # not to overlap subplots
  # cannot call figures inside the for loop because python has a max of 20 figures (nOfImages can be larger)
  
  ax1 = fig.add_subplot(nOfRows,nOfColumns,0)
  
  ax1.set_title(movingRoot + " - Slice: " + str(sliceID[a]))
  
  

• Show plot

  plt.show()
  

Plots

• Figure

  fig     = plt.figure()
  fig, ax = plt.subplots(nrows=1, ncols=1)
  

• Errorbar

  ax.errorbar(x, average, yerr=stdDev, linestyle='None', marker='o')
  

• Ticks

  plt.xticks(x) # spacing
  ax.set_xticklabels(imageNames, rotation='vertical')
  

• Axis

  ax.set_ylabel('thickness [mm]')
  

Images

• Image and mask

  ax1.imshow(slice_moving_py,   'gray', interpolation=None, origin='lower')                            # image
  ax1.imshow(slice_mask_masked, 'hsv' , interpolation=None, origin='lower', alpha=1, vmin=0, vmax=100) # mask
  ax1.axis('off') # do not show axis ticks and labels