Examples

Loading and plotting

This example illustrates the simple usage of the flimage.FLImage class for reading and managing quantitative phase data. The attribute FLImage.fluorescence yields the image data.

The image shows a young retina cell. The original dataset, available on figshare (retina-young_sinogram_fli.h5) [SCG+17], can be opened in the same manner using the flimage.FLSeries class.

simple_fluorescence.py

import matplotlib.pylab as plt
import flimage

# load the experimental data
fli = flimage.FLImage(h5file="./data/retina_p10.h5", h5mode="r")

# plot
plt.figure(figsize=(4, 3))

plt.subplot(title="fluorescence image of a mouse retina cell")
plt.imshow(fli.fl, cmap="YlGnBu_r")

plt.tight_layout()
plt.show()