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LUNA25_ts_seg

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Benjamin Hou commited on
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1 Parent(s): 9dc7a8d

add total and lung_vessels

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  1. README.md +24 -5
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README.md CHANGED
@@ -15,10 +15,26 @@ The [LUNA25 challenge](https://luna25.grand-challenge.org/) serves as a benchmar
15
  1. Use `scripts/convert_nifti.py` and `scripts/convert_nifti.sh` to convert LUNA25 `.mha` files to `.nii.gz`.
16
  2. Install [TotalSegmentator](https://github.com/wasserth/TotalSegmentator) and run `scripts/ts_lung_nodules.sh`.
17
  3. Run `scripts/get_metadata.py` to get all detected nodule info.
 
 
 
 
 
 
 
 
 
18
 
19
  ## Citation
20
 
21
  ```text
 
 
 
 
 
 
 
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  @article{wasserthal2023totalsegmentator,
23
  title={TotalSegmentator: robust segmentation of 104 anatomic structures in CT images},
24
  author={Wasserthal, Jakob and Breit, Hanns-Christian and Meyer, Manfred T and Pradella, Maurice and Hinck, Daniel and Sauter, Alexander W and Heye, Tobias and Boll, Daniel T and Cyriac, Joshy and Yang, Shan and others},
@@ -30,10 +46,13 @@ The [LUNA25 challenge](https://luna25.grand-challenge.org/) serves as a benchmar
30
  publisher={Radiological Society of North America}
31
  }
32
 
33
- @misc{luna25,
34
- title={{LUNA25: LUng Nodule Analysis Challenge}},
35
- author={{Grand-Challenge.org}},
36
- year={2025}
37
- howpublished={\url{https://luna25.grand-challenge.org/}},
 
 
 
38
  }
39
  ```
 
15
  1. Use `scripts/convert_nifti.py` and `scripts/convert_nifti.sh` to convert LUNA25 `.mha` files to `.nii.gz`.
16
  2. Install [TotalSegmentator](https://github.com/wasserth/TotalSegmentator) and run `scripts/ts_lung_nodules.sh`.
17
  3. Run `scripts/get_metadata.py` to get all detected nodule info.
18
+ 4. Optional: run `scripts/ts_total.py` for TS `total` task and `scripts/ts_lung_vessels.py` for TS `lung_vessels` task.
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+
20
+ ```text
21
+ Date installed: Mar 6, 2025.
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+ Python version: 3.9.15
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+ TotalSegmentator version: 2.7.0
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+ ```
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+
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+ For full list of package versions, see [requirements.txt](requirements.txt).
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28
  ## Citation
29
 
30
  ```text
31
+ @misc{luna25,
32
+ title={{LUNA25: LUng Nodule Analysis Challenge}},
33
+ author={{Grand-Challenge.org}},
34
+ year={2025}
35
+ howpublished={\url{https://luna25.grand-challenge.org/}},
36
+ }
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+
38
  @article{wasserthal2023totalsegmentator,
39
  title={TotalSegmentator: robust segmentation of 104 anatomic structures in CT images},
40
  author={Wasserthal, Jakob and Breit, Hanns-Christian and Meyer, Manfred T and Pradella, Maurice and Hinck, Daniel and Sauter, Alexander W and Heye, Tobias and Boll, Daniel T and Cyriac, Joshy and Yang, Shan and others},
 
46
  publisher={Radiological Society of North America}
47
  }
48
 
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+ @article{poletti2022automated,
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+ title={Automated lung vessel segmentation reveals blood vessel volume redistribution in viral pneumonia},
51
+ author={Poletti, Julien and Bach, Michael and Yang, Shan and Sexauer, Raphael and Stieltjes, Bram and Rotzinger, David C and Bremerich, Jens and Sauter, Alexander Walter and Weikert, Thomas},
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+ journal={European Journal of Radiology},
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+ volume={150},
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+ pages={110259},
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+ year={2022},
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+ publisher={Elsevier}
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  }
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  ```
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