Downloads · 30 days
0
mito-aff-unet-setup-19-worms
cellmap/mito-aff-unet-setup-19-worms
mito-aff-unet-setup-19-worms is a machine learning model from cellmap. Use it for the machine learning task on the model card, and read the license before you ship it in a product. It is set up for cellmap-models. The card lists the license as bsd-3-clause.
C-elegans worms affinities for mitochondria segmentation using a UNet architecture trained on setup 19 with 370k iterations.
Access
Public
Updated Mar 17, 2026
Repo size
9.5 GB
Likes
0
Public
Repo makeup
Click a slice to open those files.
.pt23.2 GB · 33%
At a glance
- Library
- cellmap-models
- License
- bsd-3-clause
- Access
- Public
- Created
- Mar 17, 2026
- Updated
- Mar 17, 2026
- SHA
- 4e6ff6d3
Model card
From the Hugging Face model README
mito_aff_unet_setup_19_worms
C-elegans worms affinities for mitochondria segmentation using a UNet architecture trained on setup 19 with 370k iterations.
Model Details
| Architecture | UNet |
| Framework | torch |
| Spatial Dims | 3 |
| Input Channels | 1 |
| Output Channels | 3 |
| Channel Names | mito_aff_1, mito_aff_2, mito_aff_3 |
| Iteration | 370000 |
| Input Voxel Size | 16, 16, 16 nm |
| Output Voxel Size | 16, 16, 16 nm |
| Inference Input Shape | 378, 378, 378 |
| Inference Output Shape | 256, 256, 256 |
Available Formats
| File | Format | Usage |
|---|---|---|
model.pt | PyTorch pickle | torch.load("model.pt") |
model.ts | TorchScript | torch.jit.load("model.ts") |
model.onnx | ONNX | onnxruntime.InferenceSession("model.onnx") |
metadata.json | JSON | Model metadata |
Usage
pip install cellmap-models
from cellmap_models.model_export.cellmap_model import CellmapModel
model = CellmapModel("path/to/model/folder")
# Inference
output = model.ts_model(input_tensor)
# Finetuning
trainable_model = model.train()
Or download from this repo and load directly:
from huggingface_hub import snapshot_download
from cellmap_models.model_export.cellmap_model import CellmapModel
path = snapshot_download(repo_id="mito_aff_unet_setup_19_worms")
model = CellmapModel(path)
Author
Marwan Zouinkhi
Links
- Library
- cellmap-models
- License
- bsd-3-clause
- Created
- Mar 17, 2026
- Updated
- Mar 17, 2026