For a free copy of ZEN lite image processing software, click here: ZEN lite (Windows only). The HCBI recommends frequent downloads of ZEN to ensure your software is up-to-date and compatible with files from our newest microscopes
Click here to download the ZEN Blue Image analysis guide.
For a free copy of Fiji (ImageJ) image processing software, click here: Fiji (Windows or Mac)
Axio Scan .CZI to .TIF converter
The .czi to .tif or .bigtif converter can now be downloaded here. This converter only works for .czi files acquired on the Axio Scan using JPEGXR compression. A PDF file with extensive documentation is included with the download.
Lightsheet .CZI to .TIF converter
The .czi to .tif converter for Lightsheet files is implemented as a Fiji/ImageJ macro. Click here for download, installation and help documents for timelapse/multiview files, and here for tiled files.
Click here to view the Volocity User Guide
Below are links to ImageJ plugins not included in the Fiji distribution that we have highlighted in various HCBI presentations:
Diffraction PSF 3D Generates Theoretical Point Spread Functions for deconvolution
DeconvolutionLab Deconvolves images with a user supplied PSF (theoretical or measured)
3D Object Counter Counts objects in a 3D image