Published July 20, 2017 | Version v1
Dataset Open

A cone beam scan of a rat skull

  • 1. Centrum Wiskunde & Informatica


This upload contains a circular cone beam dataset of a rat skull with teeth still attached. This dataset is suitable for testing reconstruction and image segmentation algorithms. Additional renderings of the reconstructions are included in this submission as well as the projections at angles 0 and 90. 


The dataset is acquired using the custom built and highly flexible CT scanner, FlexRay Lab, developed by XRE NV and located at CWI. This apparatus consists of a cone-beam microfocus X-ray point source that projects polychromatic X-rays onto a 1943-by-1535 pixels, 14-bit, flat detector panel. 


The dataset was collected over a 360 degrees in circular and continuous motion with 1200 projections distributed evenly over the full circle. The uploaded dataset is not normalized; a single dark and two (pre- and post-) flat fields are included for the scan. The dataset is binned by 2, meaning the size of each projection is 972-by-768 pixels. The dataset is packaged with the full list of data and scan settings files (in .txt format). These files contain the tube settings, scan geometry and full list of motor positions at the start of the scan.


Sample is of a rat skull used for various scientific experiments. The sample was mounted in a sponge to allow mounting vertically, and to dampen any vibrations from rotation. The sample was provided by Udo van Hes from Technology Centre, University of Amsterdam. The teeth of the rat are still attached to the skull and can be segmented out. We include the projections at angles 0 and 90 for viewing purposes. 


These dataset are produced by the Computational Imaging members at Centrum Wiskunde & Informatica (CI-CWI). For any useful Python/MATLAB scripts for FlexRay dataset, we refer the reader to our group's GitHub page.


For more information or guidance in using these dataset, please get in touch with 

  • s.b.coban [at]


The FlexRay Lab project is established via the collaboration of the following institutes: Centrum Wiskunde & Informatica (CWI), NIKHEF (, XRE NV ( and ASI (



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