Refined, automatic nuclei segmentations in near-isotropic, reconstructed volume electron microscopy (FIB-SEM) of mouse cerebellar granule neurons (jrc_mus-granule-neurons-1)

Segmentation description: Nuclei segmentations in jrc_mus-granule-neurons-1 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): 194.37

GPU: NVIDIA TITAN RTX

RAM: 251.0 GiB

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

Reconstructed data dimensions (µm): 52.0 x 5.4 x 17.8 (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 3.76 (X, Y, Z)

Source dataset (EM) data dimensions (µm): 52.0 x 5.4 x 17.8 (X, Y, Z)

Source dataset (EM) DOI: https://doi.org/10.25378/janelia.24222844

Dataset URL: s3://janelia-cosem-datasets/jrc_mus-granule-neurons-1/jrc_mus-granule-neurons-1.zarr/recon-2/labels/inference/segmentations/nuc/

Visualization website: https://openorganelle.janelia.org/datasets/jrc_mus-granule-neurons-1