Hey everyone! How do I convert a .czi file to single channel .tiff files in Fiji ImageJ?
Please have a look at this wonderful feature in ImageJ / Fiji (see "convert"):https://imagej.nih.gov/ij/docs/guide/146-29.html#toc-Subsection-29.12
You have an option to read files using Bio-Formats.
We had made a small script to extract LIF files in a given folder. I've modified it and it should work with CZI files, feel free to give it a shot. If you experience any problems, please post an example CZI file so that I may debug the issue.
HI I could not open the CZI images