2024.08.06

Cellpose models used for nuclei segmentation of mouse tissues.

jrc_mus-granule-neurons-1_nuc_cp: Cellpose was trained on nuclei from 12 2D slices from jrc_mus-granule-neurons-1.
jrc_mus-granule-neurons-2_nuc_cp: Cellpose was trained on nuclei from 10 2D slices from jrc_mus-granule-neurons-2.
jrc_mus-granule-neurons-3_nuc_cp: Cellpose was trained on nuclei from 21 2D slices from jrc_mus-granule-neurons-3.
jrc_mus-guard-hair-follicle_nuc_cp: Cellpose was trained on nuclei from 22 2D slices from jrc_mus-guard-hair-follicle.
jrc_mus-kidney_nuc_cp: Cellpose was trained on nuclei from 28 2D slices from jrc_mus-kidney.
jrc_mus-kidney-2_nuc_cp: Cellpose was trained on nuclei from 38 2D slices from jrc_mus-kidney-2.
jrc_mus-liver-2_nuc_cp: Cellpose was trained on nuclei from 29 2D slices from jrc_mus-liver-2.
jrc_mus-meisnner-corpuscle-1_nuc_cp: Cellpose was trained on nuclei from 21 2D slices from jrc_mus-meisnner-corpuscle-1.
jrc_mus-meisnner-corpuscle-2_nuc_cp: Cellpose was trained on nuclei from 27 2D slices from jrc_mus-meisnner-corpuscle-2.
jrc_mus-pacinian-corpuscle_nuc_cp: Cellpose was trained on nuclei from 31 2D slices from jrc_mus-pacinian-corpuscle.
jrc_mus-pancreas-1_nuc_cp: Cellpose was trained on nuclei from 34 2D slices from jrc_mus-pancreas-1.
jrc_mus-pancreas-2_nuc_cp: Cellpose was trained on nuclei from 30 2D slices from jrc_mus-pancreas-2.
jrc_mus-pancreas-3_nuc_cp: Cellpose was trained on nuclei from 4 2D slices from jrc_mus-pancreas-3.

Cellpose models used for nuclei segmentation of fly tissues

jrc_fly-mb-z0419-20: Cellpose was trained on nuclei from 32 2D slices from jrc_fly-mb-z0419-20.

Full Changelog: https://github.com/janelia-cellmap/cellmap-models/commits/2024.08.06

What's Changed

• Latest by @rhoadesScholar in #2
• Update tests.yaml by @rhoadesScholar in #3
• Load checkpoints by @mzouink in #4
• Add cellpose[gui] as a main dependency by @rhoadesScholar in #5
• Cosem classes channels by @mzouink in #6

New Contributors

• @rhoadesScholar made their first contribution in #2
• @mzouink made their first contribution in #4

Full Changelog: 2024.03.08...2024.08.06

2024.03.08

Cellpose models used for nuclei and ecs segmentation of mouse tissues.

jrc_mus-epididymis-1_nuc_cp:
jrc_mus-epididymis-2_nuc_cp:
jrc_mus-heart-1_ecs_cp:
jrc_mus-heart-1_nuc_cp:
jrc_mus-hippocampus-1_nuc_cp:
jrc_mus-kidney-3_nuc_cp:
jrc_mus-liver-3_nuc_cp:
jrc_mus-pancreas-4_nuc_cp: Cellpose was trained on nuclei from 17 2D slices from jrc_mus-pancreas-4.
jrc_mus-skin-1_nuc_cp:
jrc_mus-thymus-1_nuc_cp:

Full Changelog: https://github.com/janelia-cellmap/cellmap-models/commits/2024.03.08

Full Changelog: https://github.com/janelia-cellmap/cellmap-models/commits/2024.03.08