Study Purpose: The goal of this work is to create an annotated generic pig colon scaffold for the registration of segmented data obtained by experimental groups.
Data Collected: The generic scaffold is created based on the general description and average dimensions of pig colons as measured by experimental groups who provide data to be registered on the scaffold.
Primary Conclusion: None stated
Experimental design: Not applicable.
Completeness: The dataset is the base that will be used to link to other datasets, therefore will not be "complete" in the same sense.
Subjects & Samples: The generic scaffold is not subject/sample specific but represents an average colon of subjects used in other studies.
Primary vs derivative data: In the primary folder, nodal information and element connectivity of the scaffold are formatted as an exf file. Using the commands in the cmgui file, the scaffold can be visualized using open source software CMGUI, RRID: SCR_019271. The primary folder also contains a json file which contains parameter settings to reproduce the scaffold in ScaffoldMaker, RRID:SCR_019003. The derivative folder contains json files which are used to generate a visualization of the scaffold on the web portal, as well as a vtk file for mesh visualization.
Code availability: https://github.com/ABI-Software/scaffoldmaker (ABI-Software/scaffoldmaker Anatomical scaffold generator using OpenCMISS), https://models.physiomeproject.org/e/62a (scaffold source files)
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