Read DICOM-RT to obtain structure volumes as arrays

Beginner Questions
1

Hi all,

What I want to do is overwriting HU value of a contoured structure in a CT image.
Starting point is a CT image as DICOM sequence and a DICOM RT file for the structure set.

I know how to read in the CT image and get the array - now I need a binary array of the structure volume, which I want to overwrite. However, I am failing to read in the structure set file. Is there a way to do this with sITK?

I already saw this discussion, however I am looking for a solution for a python script, as this is only one step within a longer workflow.

Thanks for your help!

2

Hello @RT_newbie,

SimpleITK does not support DICOM RT.

This code written by @dchen which uses pydicom and vtk may be relevant.

2 Likes