Analysis: Fine-tune presegmentations in SMS Vision datasets (8 Healthy, 8 Cancer)

ENHANCE-PET / FALCON

FALCON is a Python-based software application designed to facilitate PET motion correction, both for head and total-body scans. Our program is built around the fast 'greedy' registration toolkit, which serves as the registration engine. With FALCON, users can enjoy a streamlined experience for implementing motion correction.

GNU General Public License v3.0

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Analysis: Fine-tune presegmentations in SMS Vision datasets (8 Healthy, 8 Cancer) #23

Closed LalithShiyam closed 1 year ago

josefyu commented 2 years ago

For this I need a briefing, what does the finetuning presegmentation stands for. Does it mean, SMS were MOOSEd and I shall check, if they have errors? What shall we do with the cancer patients, do we label tumor as an extra segment?

LalithShiyam commented 2 years ago

@josefyu let's discuss this once #22 is over 👍

LalithShiyam commented 2 years ago

The workflow is the following:

[x] @LalithShiyam sends in the paired-PT and paired-labels for the healthy volunteers for now (along with the paired-CT of course).
[x] @LalithShiyam to prepare the paired-PT and paired-labels for the lung cancer patients.
[x] @josefyu corrects the segmentations as accurately as possible

josefyu commented 2 years ago

Data stored on HD006/FALCON/Analysis

Patient cohort reviewed two times, all labels modified for: brain, bladder labels sometime needed to be modified: kidneys, liver, spleen mostly untouched - lung

josefyu commented 2 years ago

NRRD Segmentation for SMS Vision - Healthy

Images are on NAS SMS-vision-healthy

LalithShiyam commented 2 years ago

Hi @josef, please don't upload images here. Or the IP address. Just mention that they are present in the HDD/ELN :D once the repo goes open source everyone can see these things. Not the best way.

josefyu commented 2 years ago

removed files on github / and IP

Daria has run moose on ultra low dose vision dataset. the standard dose dataset is dynamic and MOOSE couldn't process them.

josefyu commented 2 years ago

SMS dataset with 8 patients cancer also segmented. data structure prepared as Sebi wished, and copied to LUCAPET network drive