Skip to content

Commit

Permalink
Update README.md
Browse files Browse the repository at this point in the history
  • Loading branch information
fedorov authored Jan 31, 2025
1 parent c77c3e5 commit 75e6eed
Showing 1 changed file with 6 additions and 1 deletion.
Original file line number Diff line number Diff line change
Expand Up @@ -39,6 +39,10 @@ key_investigators:
- name: Klaus Maier-Hein
affiliation: DKFZ
country: Germany

- name: Bjoern Menze
affiliation: University of Zurich
country: Switzerland

---

Expand Down Expand Up @@ -111,10 +115,11 @@ c.download_from_selection(downloadDir=".",seriesInstanceUID=test_series)
2. 1 session with Ron looking at the initial result for just one case. Issues identified: 1) unrealistic anatomy and large gap between ribs and and [erector spinae](https://www.kenhub.com/en/library/anatomy/erector-spinae-muscles); 2) incorrect segmentation of some vertebrae; 3) large gaps between the structure; 4) segmentation is too coarse.
3. Collected results from Auto3DSeg and OMAS, in addition to TotalSegmentator v1 and MOOSE for the test sample.
4. Finished [SNOMED mapping for OMAS](https://docs.google.com/spreadsheets/d/1pBicNskjMDJBnD3w4yAQroj8SGSAhDfA_TUK24dLEyc/edit?gid=1390863317#gid=1390863317).
5. Harmonized mapping from model-specific labels to SNOMED-CT codes and consistent colors for Auto3DSeg and MOOSE (see CSV files [here](https://github.com/NA-MIC/ProjectWeek/tree/master/PW42_2025_GranCanaria/Projects/ReviewOfSegmentationResultsQualityAcrossVariousMultiOrganSegmentationModels)) - [Google Sheet with current mapping](https://docs.google.com/spreadsheets/d/10VNy3kjaeXOgCRSgInCKH014134ZbD5Ezju7zZvVCRY/edit?gid=0#gid=0). Didn't finish this for OMAS!
5. Harmonized mapping from model-specific labels to SNOMED-CT codes and consistent colors for Auto3DSeg and MOOSE (see CSV files [here](https://github.com/NA-MIC/ProjectWeek/tree/master/PW42_2025_GranCanaria/Projects/ReviewOfSegmentationResultsQualityAcrossVariousMultiOrganSegmentationModels)) - [Google Sheet with current mapping](https://docs.google.com/spreadsheets/d/10VNy3kjaeXOgCRSgInCKH014134ZbD5Ezju7zZvVCRY/edit?gid=0#gid=0). Didn't finish this for OMAS! Notebook for this harmonization [here](https://colab.research.google.com/drive/1Ag4FwScTFC6CYgtDtmaC6GeBnAkpnKOw?usp=sharing).
6. Explored Slicer capabilities for joint visualization of the segmentation results, identified relevant features thanks to Steve!
7. Received Multitalent model segmentation results from Klaus Maier-Hein.
8. Co-authored with Perplexity a Google Apps script for coloring Google Sheets cells based on the RGB string - helpful for quickly evaluating color selection.
9. Brainstormed ideas for how to approach and scale up this comparison with Bjoern.

![](ts_a3ds_m.jpg)
![](ts_gaps.jpg)
Expand Down

0 comments on commit 75e6eed

Please sign in to comment.