I am working on converting CZI RGB images into BigTiff. To do so, I wrote a script that utilizes the
czifile Python package written by Christoph Gohlke.
However, when visually comparing the converted Python BigTiff image vs an exported BigTiff image from the ZEN Software, the Python BigTiff appears darker than the ZEN BigTiff. To confirm my observation, I have compared the corresponding pixel values for the Python and ZEN BigTiff and they are indeed different. Since I cannot find any obvious parameters
czifile that could be changing the image during the CZI to BigTiff Python conversion, I will assume that the
czifile package reads the raw CZI image and converts directly into BigTiff.
I would like to know if there is some common image processing pipeline that ZEN is applying to enhance the image for viewing and exporting. I understand that it might be impossible to know exactly what ZEN is doing but I would appreciate any advice or tips on applying common image processing tricks on geological samples.
I would thank you in advance for your time.
Note: We are using Python to convert CZI to BigTiff because the ZEN software is awfully slow. Unfortunately, I cannot share this images.