Generic rat brainstem scaffold

Study Purpose: The goal of this work is to create an annotated generic rat brainstem scaffold for the registration of segmented data obtained by experimental groups.

Data Collection: The generic scaffold is initially created based on the general description of rat brainstem from literature (DOI: 10.13099/VIP91106-04-0).

Primary Conclusion: None stated

Curator’s Notes:

Experimental Design: Not applicable.

Completeness: The study is ongoing and potentially will link to other datasets where the data is used for mapping onto the scaffold.

Subjects & Samples: The generic scaffold is not subject/sample specific but represents a generic rat brainstem.

Primary vs derivative data: The primary folder contains the mapping tool provenance data file describing the software environment in place when this dataset was created. The primary folder also contains the settings files which in conjunction with the software information in the provenance file, will reproduce the output files stored in the derivative folder. The derivative folder contains JSON files that are used to generate a webGL visualization of the scaffold on the SPARC portal, as well as the VTK and STL formats of the scaffold.

Code Availability: Scaffold Mapping Tools