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ENHANCE-PET / PUMA

Tool to multiplex different tracer PET data from the same patient.
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Detailed description concerning tumor segmentation #24

Open MengXiangxi opened 2 months ago

MengXiangxi commented 2 months ago

I noticed that the recent commit has added the flag of "-st" for tumor segmentation, and I expect the tumor masks could be generated with this flag enabled. However, I cannot figure out how it would work.

I compared the output of the following commands with diff:

Command 1:

pumaz -d $TARGET_DIR -ir arms,legs,head -st

Command 2:

pumaz -d $TARGET_DIR -ir arms,legs,head

I failed to notice any significant differences.

I am wondering:

  1. If is possible to elaborate a little bit about the mechanism and the output of this tumor segmentation function?
  2. Is it equivalent to manually run the LION model (moosez -d $INPUT_DIR -m clin_pt_fdg_tumor) with the registered PET and CT nifti files?
LalithShiyam commented 1 month ago

Hi there, We removed this functionality as it's experimental. Sorry. I will remove the flag. Cheers, Lalith

LalithShiyam commented 1 month ago

Closing this as its not going to be implemented.

LalithShiyam commented 1 month ago

Hi @MengXiangxi I misunderstood your question. Surprising you know about LION as well. Yes, it is basically spinning out a tumor segmentation that works on mpx images.