Confocal Image Analysis

Both locations provide access to powerful computers and image analysis software:

Image Analysis Software Used at the Core Facility

Description LM HCA EM 3D Statistic Open Source Info
Fiji Fiji is an image processing package Checked UnChecked

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(via 3D Viewer Plugin)
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Ilastik Ilastik is an interactive learning & segmentation toolkit Checked UnChecked

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Microscopy Image Browse MIB is a GUI tool for advanced manipulation with microscopy images and segmentation Checked UnChecked

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(Export Amira/Imaris/IMOD 3D model)
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IMOD IMOD is a set of image processing, modeling and display programs used for tomographic reconstruction and for 3D reconstruction of EM serial sections and optical sections. UnChecked UnChecked

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CellProfiler is free open-source software designed to enable biologists without training in computer vision or programming to quantitatively measure phenotypes from thousands of images automatically. Checked Checked UnChecked UnChecked Checked Checked View
Volocity® 3D Image Analysis Software provides tools to visualize, analyze and validate 3D fluorescence images from a wide range of confocal microscopy, widefield and HCS systems. Checked Checked UnChecked Checked Checked UnChecked View
Imaris® is a software module that delivers all the necessary functionality for data visualization, analysis, segmentation and interpretation of 3D and 4D microscopy datasets Checked UnChecked UnChecked Checked Checked UnChecked View
IN Cell Investigator® offers a flexible and comprehensive solution for automated high-content analysis of live and fixed cell assays. Checked Checked UnChecked UnChecked

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Zen® is the single user interface you will see on all light microscopy imaging systems from Carl Zeiss Checked UnChecked UnChecked UnChecked

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Analyze It® transform Excel® into a world-class statistical software package. UnChecked UnChecked UnChecked UnChecked

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