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zhongzisha / ISBI2018_PETCT_Segmentation

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Preprocessing script #3

Open sriram98v opened 3 years ago

sriram98v commented 3 years ago

is it possible for you to share the script of how you converted the raw image intensities to standardized uptake values (SUV) for PET images you mentioned in the paper you referenced (3D Alpha Matting Based Co-segmentation of Tumors on PET-CT Images) in the pre-processing section

koriavinash1 commented 3 years ago

Hey @zhongzisha, Can you share a script for an end to end segmentation generation given a raw CT and PET registered volumes?

Thank you

zhongzisha commented 3 years ago

@sriram98v @koriavinash1

Apologize for this late reply!

Unfortunately, I do not have the script at hand. These works were completed when I worked as a postdoc at the University of Iowa. And I do not have the permissions/rights to share all those things.

In fact, some preprocessing steps (such as patient management, PET-CT registration, etc.) were being done in laboratory of the hospital using the commercial software (Thanks to the University of Iowa Hospitals & Clinics). The software can also provide the converted PET SUV volumes (from DICOM intensity value to SUV value). We just need to export them from the database for subsequent processing and analysis.

With regarding to the PET SUV computation, please refer to the NCI-QIICR project (http://qiicr.org/tool/PETDICOM/), they have introduced an implementation as an extension for the open source 3D Slicer software (https://www.slicer.org/).

When doing the medical image/information computing, I suggest having collaborations with clinical experts/doctors for their expertise in medical/clinical knowledge.