Imaris - Software from Bitplane for visualization and quantification of 3D and 4D microscopy data. Some application examples are: tracking of objects over time, tracing filamentous structures, analysing colocalization, recording movies, and visualising data. Examples of data processed with Imaris can be found in Bitplane's learning center.
Amira - Thermo Scientific Amira Software is a 2D-5D platform for visualising, manipulating, and understanding life science research data from many image modalities, including EM, CT, MRI, 3D Microscopy, and other techniques.
scan^R - High content screening software from Olympus for analysing large quantities of images, especially those acquired using our scan^R automated microscopy system.
Matlab – General purpose computing environment that can be used to implement complex image analysis algorithms, and to create graphical user interfaces. A Matlab toolbox dedicated to image processing is also available.
Zen – Image acquisition software for our Carl Zeiss microscopes that also contains several plugins for processing and analysis of acquired images.
ImageJ/FIJI - Developed at NIH, this software works on both PC and Mac and can open most file formats. Many plugins designed for specific image analysis problems have been developed by the ImageJ community and are freely available. The installation package called Fiji comes with many plugins already installed and you can build your own workflow (called macro).
CellProfiler - A software package that enables scientists without training in image processing or programming to quantitatively measure phenotypes from thousands of fluorescence microscopy images automatically.
Ilastik – A software tool that uses machine learning for image classification and segmentation. No previous experience in image processing is required.
IMOD - A set of image processing, modelling and display programs used for tomographic or 3D reconstruction of EM serial sections and optical sections. The package contains tools for assembling and aligning data within multiple types and sizes of image stacks and viewing 3D data from any orientation.
Zen lite - With this software you can easily open the images that you have acquired with all our Carl Zeiss microscopes. The software is only compatible with PC.