Neuron Segmentation¶
Dense neuron segmentation in EM is an instance segmentation task. The canonical pipeline first predicts an affinity map (the connectivity of each voxel to its neighbors) with an encoder-decoder, then converts the affinity map into a segmentation via watershed or a similar algorithm.
This section covers two benchmarks:
SNEMI3D — the classic small isotropic-anisotropic benchmark, used for end-to-end affinity training and waterz post-processing. Evaluated with Rand Index and Variation of Information.
NISB — a larger, anisotropic neuron-segmentation benchmark evaluated with the NERL skeleton metric. Reproduction targets in
tutorials/neuron_nisb/mirror the upstream BANIS pipeline.
