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Tools and Data Release
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Data and Software Release
FlyEM will generally pursue an open policy with our datasets, software, and algorithms after relevant publications. When an EM reconstruction is published, the derived connectome and reconstructed neuronal skeletons will be made available online. Furthermore, we have provided links to raw data and ground truth segmentation to facilitate advances to image segmentation. FlyEM emphasizes publication of supporting techniques and software approaches before major EM reconstruction releases to encourage rapid feedback from the community and adoption of our strategies.
If you are interested in trying to automatically segment EM volumes, please review some of the Challenges and Potential Solutions in EM Segmentation.
Currently Available:
- Various connectome reconstructions (ground truth labels plus original grayscale) through DVID API.
- FlyEM maintains much of its software in the open-source repository GitHub.
- 7-column medulla raw and ground truth segmentation (through DVID API)
- One-column of Drosophila medulla (ssTEM) (grayscale plus segmentation and annotations) upon request.
- 7-column Drosophila medulla connectome data (public for algorithm analysis only)
- The dataset FIB-25, is the raw EM data for the 7 medulla column FIB-SEM reconstruction, as reported in the paper "Synaptic circuits and their variations within different columns in the visual system of Drosophila" by Takemura, et al. The full set of 8000 images, combined into one large tar file (about 100 GB) is here: http://research.janelia.org/FIB-25/FIB-25.tar.bz2
- A subset, containing each 1000th layer, is here: http://research.janelia.org/FIB-25/FIB-25-sample.tar.bz2