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Update README.md with more cellpose models
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aemmav authored Aug 2, 2024
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Expand Up @@ -10,22 +10,51 @@ This directory contains scripts for downloading finetuned Cellpose models, parti

**jrc_mus-epididymis-2_nuc_cp:**

**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-heart-1_ecs_cp:**

**jrc_mus-heart-1_nuc_cp:**

**jrc_mus-hippocampus-1_nuc_cp:**

**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-kidney-3_nuc_cp:**

**jrc_mus-liver-2_nuc_cp:** Cellpose was trained on nuclei from 29 2D slices from jrc_mus-liver-2.

**jrc_mus-liver-3_nuc_cp:**

**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.

**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:**

### Trained on fly tissues
**jrc_fly-mb-z0419-20:** Cellpose was trained on nuclei from 32 2D slices from jrc_fly-mb-z0419-20.

## Usage

Once you have chosen a model based on the descriptions above, you can download its weights from the `cellmap-models` repository and use them as described below:
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