fidoptCREMI sections, known in-plane deformation
A section of a serial-section TEM volume of an adult Drosophila brain (CREMI test volumes A+, B+, C+) paired with a known smooth deformation of itself: it measures the recovery of a known in-plane warp, not the alignment of adjacent sections.
10 test pairsdrosophila brainsame sectionfixed ELECTRON MICROSCOPY, moving ELECTRON MICROSCOPY2D, distances in nmdelivered alignedresearch only
Read before comparing (5)
- Truth. Both sides are the same original section before the warp, since a known warp applied to a neighbouring section would not make its correspondence exact. The points lie at least 20 pixels (80 nm) inside every border, beyond the 16-pixel (64 nm) bound on each deformation component.
- Units. The HDF5 attribute gives 4 nm a pixel in the plane, so coordinates and distances are in nanometres; the build fields amplitude_mm and spacing_mm hold nanometres here (16 and 64 pixels, SNEMI3D's warp in pixels).
- Volumes. Only the test volumes A+, B+ and C+, released without labels, are read: the labelled training volumes A, B and C are the segmentation set CREMIClefts, so no image is in both: no section of the six volumes matches another volume's (correlation at most 0.43, where a section sharing 30% of its area scores 1). Four blank or degraded sections are held out (A+ 51, B+ 44, C+ 14 and 74).
- Start. With no registration the mean landmark error of a test section is 20.2 to 25.1 nm (5.1 to 6.3 pixels), median 22.2 nm. Fixed and moving are one image before the warp, so the line checks a method's convention and interpolation more than it separates methods.
- Licence. cremi.org states no licence: ask before any use beyond research.
No method has a result on every pair of this dataset yet.
Pair by pair
Click a score to look at that result: the fixed image, and over it the moving image after registration, with the annotations. Underlined scores have their image; for the others you see the pair without the result. A green cell gained against no registration on that pair, a red one lost.
About the data
- Test pairs
- 10 test sections drawn with seed 2026 from the provider's three test volumes, stratified by volume, and 10 development sections from the same volumes, none within ten sections of a test or another development section. All six CREMI volumes are cut-outs of one fly brain: a synthetic track, not an animal-independent split.
- Truth
- landmarks a known deformation One hundred interior image points paired through the inverse of the corpus-added B-spline deformation of that same section.
- Licence
- none stated: cremi.org offers the volumes for download and names no terms
10 pairs for tuning, never tested
Bplus_z033, Cplus_z025, Aplus_z121, Bplus_z114, Cplus_z097, Aplus_z044, Bplus_z064, Aplus_z016, Cplus_z109, Cplus_z007