MorphoGraphX Tutorial 4: Segmentation

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Abstract/Contents

Abstract: MorphoGraphX is an open-source image processing software designed to work with complex tissue. It allows for analysis of 3D stacks as well as time-lapse analysis at a scale that can detect fluorescence signals from individual cells. Here, I built tutorials for MorphoGraphX intended to help others learn the software for use on their own research. These tutorials step through the entire process of MorphoGraphX data analysis: set up and controls, creating a cell mesh, generating a 2.5D image from the mesh, segmenting the mesh, heat maps for the mesh, stitching of time-lapse images together, parent labeling for time-lapse analysis, growth heat maps for time-lapse, and principal directions of growth (PDGs) for time-lapse.

Type of resource	moving image
Date created	June 2017

Author	Cho, Nathan
Principal investigator	Bergmann, Dominique
Degree granting institution	Stanford University, Department of Biology, 2017

Use and reproduction: User agrees that, where applicable, content will not be used to identify or to otherwise infringe the privacy or confidentiality rights of individuals. Content distributed via the Stanford Digital Repository may be subject to additional license and use restrictions applied by the depositor.
License: This work is licensed under a Creative Commons Attribution Share Alike 3.0 Unported license (CC BY-SA).

Preferred Citation: Cho, Nathan and Bergmann, Dominique. (2017). MorphoGraphX Tutorial 4: Segmentation. Stanford Digital Repository. Available at: http://purl.stanford.edu/bt200jv8205

Undergraduate Theses, Department of Biology, 2016-2017

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