Refined, automatic nuclei segmentations in near-isotropic, reconstructed volume electron microscopy (FIB-SEM) of mouse cerebellar granule neurons (jrc_mus-granule-neurons-3)

Segmentation description: Nuclei segmentations in ACQUISITIONID using Cellpose 3.0.9 with cursory manual corrections.

Software: Cellpose 3.0.9

Software DOI: https://doi.org/10.1038/s41592-022-01663-4

Prediction Duration (seconds): 349.56

GPU: NVIDIA TITAN RTX

RAM: 251.0 GiB

Label voxel size (nm): 128 x 128 x 128 (x, y, z)

Reconstructed data dimensions (µm): 31.2 x 12 x 20.19 (x, y, z)

Classes annotated: Nucleus

Source dataset (EM) ID: jrc_mus-granule-neurons-3

Source dataset (EM) voxel size (nm): 4 x 4 x 5.37 (x, y, z)

Source dataset (EM) data dimensions (µm): 31.2 x 12 x 20.19 (x, y, z)

Source dataset (EM) DOI: https://doi.org/10.25378/janelia.24222892

Dataset URL: s3://janelia-cosem-datasets/jrc_mus-granule-neurons-3/jrc_mus-granule-neurons-3.zarr/recon-2/labels/inference/segmentations/nuc/

Visualization website: https://openorganelle.janelia.org/datasets/jrc_mus-granule-neurons-3