Multi-Modal Image Segmentation with Python & SimpleITK

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In this post I will show how to use SimpleITK to perform multi-modal segmentation on a T1 and T2 MRI dataset for better accuracy and performance. The tutorial will include input and output of MHD images, visualization tricks, as well as uni-modal and multi-modal segmentation of the datasets.

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Image Segmentation with Python and SimpleITK

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In this post I will demonstrate SimpleITK, an abstraction layer over the ITK library, to segment/label the white and gray matter from an MRI dataset. I will start with an intro on what SimpleITK is, what it can do, and how to install it. The tutorial will include loading a DICOM file-series, image smoothing/denoising, region-growing image filters, binary hole filling, as well as visualization tricks.

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Surface Extraction: Creating a mesh from pixel-data using Python and VTK

In this post I will demonstrate how to use VTK to read in a series of DICOM files from a CT examination and extract a mesh surface of the bone structures. I will then show you how to visualize the mesh with VTK and save it, the mesh that is, into an STL file.

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