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

dataset
posted on 2024-03-12, 20:07 authored by CellMap Project TeamCellMap Project Team, David Ackerman, Jeff Rhoades, Aubrey WeigelAubrey Weigel, Yurii Zubov

Segmentation description: Nuclei segmentations in jrc_mus-liver-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): 145.32 x 114.98 x 114.26 (x, y, z)

Classes annotated: Nucleus

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

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

Source dataset (EM) data dimensions (µm): 145.32 x 114.98 x 114.26 (x, y, z)

Source dataset (EM) DOI: https://doi.org/10.25378/janelia.24051189

Dataset URL (redirect): https://data.janelia.org/CiWnl

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


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