Generic pig colon scaffold

Mabelle Lin
,
Richard Christie
,
Peter Hunter

Annotated pig colon scaffold available for registration of segmented neural anatomical-functional mapping of enteric neural circuits.

Updated on June 29, 2021 (Version 3)

Corresponding Contributor:

Mabelle Lin
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Dataset Overview

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


Curator’s Notes

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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About this dataset

Publishing history

January 20, 2021
Originally Published
June 29, 2021 (Version 3)
Last Updated

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