.. DO NOT EDIT.
.. THIS FILE WAS AUTOMATICALLY GENERATED BY SPHINX-GALLERY.
.. TO MAKE CHANGES, EDIT THE SOURCE PYTHON FILE:
.. "auto_examples/flim/plot_intensity_image.py"
.. LINE NUMBERS ARE GIVEN BELOW.

.. only:: html

    .. note::
        :class: sphx-glr-download-link-note

        :ref:`Go to the end <sphx_glr_download_auto_examples_flim_plot_intensity_image.py>`
        to download the full example code

.. rst-class:: sphx-glr-example-title

.. _sphx_glr_auto_examples_flim_plot_intensity_image.py:


===============
Intensity image
===============

.. GENERATED FROM PYTHON SOURCE LINES 9-17

.. code-block:: Python

    import pylab as plt
    import tttrlib

    ht3_filename_img = '../../tttr-data/imaging/pq/ht3/crn_clv_img.ht3'
    data = tttrlib.TTTR(ht3_filename_img, 'HT3')

    clsm = tttrlib.CLSMImage(tttr_data=data, fill=True, channels=[0])








.. GENERATED FROM PYTHON SOURCE LINES 18-19

CLSM images usually consist of a set of frames.

.. GENERATED FROM PYTHON SOURCE LINES 19-24

.. code-block:: Python

    intensity = clsm.intensity
    print(intensity.shape)
    plt.imshow(clsm.intensity.sum(axis=0))
    plt.show()




.. image-sg:: /auto_examples/flim/images/sphx_glr_plot_intensity_image_001.png
   :alt: plot intensity image
   :srcset: /auto_examples/flim/images/sphx_glr_plot_intensity_image_001.png
   :class: sphx-glr-single-img


.. rst-class:: sphx-glr-script-out

 .. code-block:: none

    (40, 256, 256)




.. GENERATED FROM PYTHON SOURCE LINES 25-29

Filled CLSMImages can be stacked. Stacking assigns the photons of pixels
in frames to the first frame. Note, stacking simply combines the tttr indices
in a pixels. After stacking the CLSMImage should not be "refilled" as this
can result in undefined behavior.

.. GENERATED FROM PYTHON SOURCE LINES 29-31

.. code-block:: Python

    clsm.stack_frames()
    clsm_stacked_int = clsm.intensity








.. rst-class:: sphx-glr-timing

   **Total running time of the script:** (0 minutes 5.319 seconds)


.. _sphx_glr_download_auto_examples_flim_plot_intensity_image.py:

.. only:: html

  .. container:: sphx-glr-footer sphx-glr-footer-example

    .. container:: sphx-glr-download sphx-glr-download-jupyter

      :download:`Download Jupyter notebook: plot_intensity_image.ipynb <plot_intensity_image.ipynb>`

    .. container:: sphx-glr-download sphx-glr-download-python

      :download:`Download Python source code: plot_intensity_image.py <plot_intensity_image.py>`


.. only:: html

 .. rst-class:: sphx-glr-signature

    `Gallery generated by Sphinx-Gallery <https://sphinx-gallery.github.io>`_