fidoptCREMI synaptic clefts
A block of a serial-section TEM volume of an adult Drosophila brain, 4 x 4 x 40 nm a voxel, its synaptic clefts segmented by hand and merged into one label (CREMI).
10 test casesdrosophila brainimage EMresearch only
Read before comparing (5)
- Truth. The clefts are thin sheets a few voxels thick; the neuron ids and the synaptic partner annotations of the same volumes are not used, waiting for an instance metric.
- Ranked apart. Three volumes of one fly cut into blocks: the ten test blocks come from two volumes and are correlated, not ten independent subjects.
- Volumes. The test volumes A+, B+ and C+ have no public labels; their sections are the registration set CREMI, so no image is in both. Volume C, the development one, holds two blank sections (14 and 74) and three times the cleft density of A and B.
- Start. Clefts are 0.01 to 0.55% of a test block: the whole block named cleft scores a median Dice of 0.005, its dark voxels (Otsu) 0.012.
- Licence. cremi.org states no licence: ask before any use beyond research.
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
- Each of the three labelled volumes is cut into eight blocks, halves along each axis. 10 test blocks drawn with seed 2026 from volumes A and B, five each, and the 8 blocks of volume C for development, so no volume crosses the split. All three volumes are cut-outs of one fly brain.
- Truth
- contours by experts volumes/labels/clefts, the synaptic clefts drawn by hand by Julia Buhmann and Chong Zhang, reviewed by Jan Funke, one id a cleft; the corpus merges the ids into one label
- Licence
- none stated: cremi.org offers the volumes for download and names no terms
8 cases for tuning, never tested
C_z062_y0000_x0625, C_z000_y0625_x0625, C_z000_y0000_x0000, C_z000_y0625_x0000, C_z000_y0000_x0625, C_z062_y0625_x0625, C_z062_y0000_x0000, C_z062_y0625_x0000