fidoptREAD-PE pulmonary emboli
CT pulmonary angiography of one patient with acute pulmonary embolism, on a GE or Toshiba scanner, with the emboli drawn by a radiology resident and revised by a radiologist (READ-PE).
10 test caseslungimage CT
Read before comparing (5)
- Cases. A CT pulmonary angiography a patient with acute pulmonary embolism, from its DICOM slices: 0.59 to 0.82 mm pixels, slices 0.625 mm (GE Revolution) or 0.8 mm (Toshiba Aquilion) apart, in whole Hounsfield units, padding and metal values as delivered. No mask.
- Labels. The emboli, one label, drawn on the CT's own voxels; the masks' NIfTI headers round the slice spacing (0.801 mm for the DICOM's 0.800), so prepare.py gives them the image's geometry, voxel for voxel.
- Truth. A third-year radiology resident drew the emboli in ITK-SNAP and a board-certified radiologist revised them (de Andrade et al. 2023). One delineation an exam; no agreement between readers is published. The emboli measure 0.07 to 30 mL on the test exams: on the smallest a few voxels' error weighs on the Dice.
- Start. A mask of the whole image scores a Dice of 0.0005 at the median of the test exams, an Otsu mask 0.0008. TotalSegmentator has no embolus class.
- Overlap. FUMPE's CT angiographies come from Mashhad, Iran (NeuViz 16); these from Curitiba, Brazil (Hospital de Clínicas UFPR and DAPI, 2018–2019): other hospitals, other patients. No other dataset of the corpus names READ-PE.
No method has a result on every case of this dataset yet.
Case by case
Click a score to look at that result: the image, the truth in green and the method's map in red. Underlined scores have their image; for the others you see the case without the result.
About the data
- Test cases
- 10 test exams drawn with seed 2026, five on each scanner, and 10 development exams, from the deposit's 40 (20 GE Revolution, 20 Toshiba Aquilion), one exam a patient. No split is released.
- Truth
- contours by experts the deposit's embolus masks, drawn in ITK-SNAP by a third-year radiology resident and revised by a board-certified radiologist (de Andrade et al. 2023)
- Source
- doi.org/10.6084/m9.figshare.c.6033134.v1
doi.org/10.6084/m9.figshare.22345240.v1
doi.org/10.1038/s41597-023-02374-x - Licence
- CC0
10 cases for tuning, never tested
19GE, 03TS, 06GE, 20TS, 08GE, 02TS, 05GE, 09TS, 11GE, 07TS