Refined, automatic nuclei segmentations in near-isotropic, reconstructed volume electron microscopy (FIB-SEM) of P7 mouse kidney (jrc_mus-kidney-3)

Segmentation description: Nuclei segmentations in jrc_mus-kidney-3 using Cellpose 2.0 with minimal manual corrections.

Software: Cellpose 2.0

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

GPU: NVIDIA TITAN RTX

RAM: 768.0 GiB

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

Reconstructed data dimensions (µm): 143.36 x 120.78 x 163.07 (x, y, z)

Classes annotated: Nucleus

Source dataset (EM) ID: jrc_mus-kidney-3

Source dataset (EM) voxel size (nm): 8 x 8 x 8 (x, y, z)

Source dataset (EM) data dimensions (µm): 143.36 x 120.78 x 163.07 (x, y, z)

Source dataset (EM) https://doi.org/10.25378/janelia.24020799

Dataset URL: https://data.janelia.org/3y6to

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