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

<p><br></p><p dir="ltr"><b>Segmentation description</b>: Nuclei segmentations in jrc_mus-kidney using Cellpose 3.0.9 with cursory manual corrections.</p><p dir="ltr"><b>Software</b>: Cellpose 3.0.9</p><p dir="ltr"><b>Software DOI</b>: <a href="https://doi.org/10.1038/s41592-022-01663-4" target="_blank"><u>https://doi.org/10.1038/s41592-022-01663-4</u></a></p><p dir="ltr"><b>Prediction Duration (seconds)</b>: 542.62</p><p dir="ltr"><b>GPU</b>: NVIDIA TITAN RTX</p><p dir="ltr"><b>RAM</b>: 251.0 GiB</p><p dir="ltr"><b>Label voxel size (nm)</b>: 128 x 128 x 128 (x, y, z)</p><p dir="ltr"><b>Reconstructed data dimensions (µm)</b>: 98.3 x 63.6 x 177.6 (X, Y, Z)</p><p dir="ltr"><b>Classes annotated</b>: Nucleus</p><p dir="ltr"><b>Source dataset (EM) ID</b>: jrc_mus-kidney</p><p dir="ltr"><b>Source dataset (EM) voxel size (nm)</b>: 8.0 x 8.0 x 8.0 (X, Y, Z)</p><p dir="ltr"><b>Source dataset (EM) data dimensions (µm)</b>: 98.3 x 63.6 x 177.6 (X, Y, Z)</p><p dir="ltr"><b>Source dataset (EM) DOI</b>: <a href=" https://doi.org/10.25378/janelia.16913035" rel="noreferrer" target="_blank">https://doi.org/10.25378/janelia.16913035</a></p><p dir="ltr"><b>Dataset URL</b>: <a href="https://data.janelia.org/9my5eA" rel="noreferrer" target="_blank">s3://janelia-cosem-datasets/jrc_mus-kidney/jrc_mus-kidney.zarr/recon-1/labels/inference/segmentations/nuc/</a></p><p dir="ltr"><b>Visualization website</b>: <a href="https://openorganelle.janelia.org/datasets/jrc_mus-kidney" rel="noreferrer" target="_blank">https://openorganelle.janelia.org/datasets/jrc_mus-kidney</a></p>