junqiangchen/HVSMR2016Challenge

HVSMR 2016: MICCAI Workshop on Whole-Heart and Great Vessel Segmentation from 3D Cardiovascular MRI in Congenital Heart Disease

Whole-Heart and Great Vessel Segmentation from 3D Cardiovascular MRI in Congenital Heart Disease

This is an example of the MRI imaging is used to segment whole heart.

Prerequisities

The following dependencies are needed:

• numpy >= 1.11.1
• SimpleITK >=1.0.1
• tensorflow-gpu ==1.14.0
• pandas >=0.20.1
• scikit-learn >= 0.17.1

How to Use

1、Preprocess

• download MRI image data:http://segchd.csail.mit.edu/
• generate patch(96x96x96) image and mask image:run the data3dprepare.py

2、HVSMR Segmentation

• the mutlidepthVnet3d model can find here:https://github.com/junqiangchen/VNetFamily
• train and predict in the script of trainop.py and inferenceopt.py

Result

• test dataset segmentation result

Contact

• https://github.com/junqiangchen
• email: 1207173174@qq.com
• Contact: junqiangChen
• WeChat Number: 1207173174
• WeChat Public number: 最新医学影像技术