| Neuroscience is an important topic in nowadays, and rat is one of the broadest experimental animals. However, the huge amount of data collected by neuroscientists will become meaningless if we cannot give them a precise description of their locations. The Rat Brain Atlas is a powerful tool for such questions.This work is supported by the project of"3D reconstruction of rat brain atlas and MR image analyzing system", which comes from Wuhan Institute of Physics & Mathematics the Chinese Academy of Sciences. The purpose of this project is to further implement the image analysis and visualization functions based on the former work"3D MR image processing system".This thesis focuses on the following aspects of MR image visualization: preprocessing of MR and atlas images; 3D reconstruction and visualization; anatomical structures registration, localization and labeling.In the preprocessing part, the vectorial atlas slices are transformed into scalars. The brain of the rat is extracted from MR images with SNAKE model. Then, the two type slices are re-sampled with the same resolution.In the part of 3D reconstruction and visualization, we implemented volume rendering of rat brain based on ray-casting and texture mapping separately, surface rendering based on MC algorithm, and 3D arbitrary cutting view utilizing VTK.A manual registration method is introduced, furthermore, an automatic registration strategy based on PCA is implemented in the part of registration between atlas and MR image. In addition, the localization and labeling of ROI in 2D and 3D MR image are completed at last.Considering customers'require, taking the engineering's principle of Object Oriented (OO) and stability and compatibility into account, this system is designed and implemented with Visual C++6.0 and VTK on windows platform. Practice proved that this system has a higher capability than our former MRI processing system in rat brain anatomic structure analysis. |
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