thresholding value for clothing and patient bed removal

[gokceay]

Hi,

By using your code is it possible to remove clothing, patient bed etc. removal by changing HU threshold values or trying something else? I tried a few threshold value for skin extraction and soft tissue but could not get a clean stl.
Thanks in advance,
Kind regards
Gokce

[dave3d]

I'm afraid there's no way to remove those thing simply based on a threshold. I think the Hounsfield units of cloth and the bed are similar to soft tissue, so you can't just pick a value. You really need some sort of model based segmentation approach.

[gokceay]

Thanks a lot, I segmented the patient bed and clothing using another code, is it possible to convert to stl directly without selecting the bone skin soft tissue part specifically? I want to convert my segmented dicom to stl directly. Thanks in advance

[dave3d]

If you can select a good iso-value, then you can use my script to create a STL mesh of that iso-value. Examine the pixel intensities of the thing you're trying to extract, and pick a number somewhere in the middle range of those intensities.

Let's say you thing 200 is a reasonable iso-value. Then you'd run the script like this:

dicom2stl.py -i 200 dicom.zip