使用SimpleITK进行图像分割和配准 [英] Image segmentation and registration using SimpleITK
问题描述
我对3D图像配准和分割有一些疑问:
I have some doubts regarding 3D image registration and segmentation:
-
加载dicom图像:在DCE-MRI中，有4000个切片，共100个堆栈，因此每个堆栈40个.如何使用GDCM simpleITK函数将它们加载到4D数组中
Load dicom images: In DCE-MRI there are 4000 slices and total 100 stacks, so 40 in each stack. How can I load them to a 4D array using GDCM simpleITK function
注册:注册非常简单，我们必须将所有100个堆栈注册到第一个堆栈中.
Registration: registration is pretty straight forward, we have to register all 100 stacks to the first stack.
套准精度:SimpleITK重叠率度量或hausdroff距离需要分段和标记.现在，对于所有类型的图像而言，使用区域增长或阈值化进行分割都不容易.假设我只是想手动，交互地选择一个区域.有可能实现这一目标吗?然后我只想使用所选的蒙版进行配准精度评估.
Registration accuracy : SimpleITK overlap ratio measure or hausdroff distance need segmentation and labelling. Now segmentation using region growing or thresholding is not easy for all kind of images. Let suppose I just want to select a region manually , interactively. Is it possible to achieve that ? Then I just want to use that selected mask for registration accuracy evaluation.
可视化和编写:需要使用matplotlib或VTK在3D中进行可视化.所有绘图功能均适用于2D切片，因此再次不需要2D可视化. 使用simpleITK写入图像功能写入dicom图像时，对于dicom图像，仅写入图像对象无效.我们需要将类型更改为UInt32，但是图像变得有损.它成功写入了.mha格式，但是imageJ无法显示.
Visualization and write : need to visualize in 3D using matplotlib or VTK. All plot functions are working for 2d slice, again visualizing in 2D is not desired. While writing to a dicom image using simpleITK write Image function, for dicom image just writing the image object is not working. We need to change type to UInt32 , but then the image becomes lossy. It successfully writes to a .mha format, but imageJ fails to display.
如果可能，请分享您的想法.
If possible please share your thoughts.
推荐答案
3D Slicer 具有加载DCE MRI系列的功能作为4D卷.您可以在这篇文章中找到该教程如何使用3D Slicer的功能:
3D Slicer has functionality to load DCE MRI series as 4D volumes. You can find the tutorial how to use this functionality of 3D Slicer in this post: https://discourse.slicer.org/t/how-to-analyze-dce-mri-data/622.
这篇关于使用SimpleITK进行图像分割和配准的文章就介绍到这了，希望我们推荐的答案对大家有所帮助，也希望大家多多支持IT屋！
