The ground truth stack 1 contains 20 sections from serial section Transmission Electron Microscopy (ssTEM) of the Drosophila melanogaster third instar larva ventral nerve cord. The cube measures 4.7 x 4.7 x 1 microns approx, with a resolution of 4.6 x 4.6 nm/pixel and section thickness of 45-50 nm.
Use stack 1 to train pixel classifiers for the purpose of automatic segmentation of neural structures in ssTEM. For instance, use 80% of the sections to train, and 20% of the sections for validation. Apply the classifier to the raw data of stack 2 (test data) and send us the results, so we're able to compute pixel-wise and other error measures in the subsequent neuron reconstruction pipeline.
This work is licensed under a
Creative Commons Attribution-NonCommercial-ShareAlike 3.0 Unported License.
You are free to use this data set for the purpose of generating or testing non-commercial image segmentation software. If any scientific publications derive from the usage of this data set, you must cite:
Segmented anisotropic ssTEM dataset of neural tissue. Stephan Gerhard, Jan Funke, Julien Martel, Albert Cardona, Richard Fetter. figshare. Retrieved 16:09, Nov 20, 2013 (GMT) http://dx.doi.org/10.6084/m9.figshare.856713
/stack1/
/raw: The raw 8-bit greyscale images
/membranes: Series of binary images of segmented membranes
/mitochondria: Series of binary images of segmented mitochondria
/synapses: Series of binary images of segmented synapses
/labels: Series of merged labels including oriented membranes, membrane junctions,
mitochondria and synapses. The pixels are labeled as follows:
0 -> membrane | (0°)
32 -> membrane / (45°)
64 -> membrane - (90°)
96 -> membrane \ (135°)
128 -> membrane "junction"
159 -> glia/extracellular
191 -> mitochondria
223 -> synapse
255 -> intracellular
/stack2/
/raw: The raw 8-bit greyscale images