napari-SAMV2
Napari plugin to use segment anything version 2.1 models from Meta.
Plugin made for segmenting 3d volumetric data or 3d time series data.
Installation
The plugin requires the following pre-requisite to be installed :
- Python and pytorch versions
python>=3.10,torch>=2.5.1 and torchvision>=0.20.1 required
To install pytorch with your respective OS please visit - https://pytorch.org/get-started/locally/
- SAM v2 installation from meta
Please refer https://github.com/facebookresearch/sam2
- Install napari
python -m pip install "napari[all]"
Following is a sample conda environment installation with the above pre-req
conda create -n samv2_env python=3.10
conda activate samv2_env
pip3 install torch torchvision
git clone https://github.com/facebookresearch/sam2.git && cd sam2
pip install -e .
python -m pip install "napari[all]"
pip install napari-SAMV2
Usage
Middle mouse click - positive point or keyboard shortcut "a"
Ctrl + Middle mouse click - negative point or keyboard shortcut "n"
Time Series Segmentation :
Volume Segmentation :
Reference :
Example Data in the demo videos are from,
Cell tracking challenge - https://celltrackingchallenge.net/
and
FlyEM project - https://www.janelia.org/project-team/flyem/hemibrain
License
Distributed under the terms of the BSD-3 license, "napari-SAMV2" is free and open source software
Issues
If you encounter any problems, please file an issue along with a detailed description.
1 maintainer
Release files for napari-samv2 0.1.3
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | |
|---|---|---|---|
| napari_samv2-0.1.3.tar.gz | 17.3 kB | Details |
Built distribution (wheel)
| File | Interpreter | ABI | Platform | Reset |
|---|---|---|---|---|
| napari_samv2-0.1.3-py3-none-any.whl | Python 3 | none | any | Details |
Total release size: 31.1 kB
Release files / napari_samv2-0.1.3.tar.gz
| Download URL | napari_samv2-0.1.3.tar.gz |
|---|---|
| Size | 17.3 kB |
| Tags | Source |
|
SHA-256 checksum How to use checksums |
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twine/6.2.0 CPython/3.13.7
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Release files / napari_samv2-0.1.3-py3-none-any.whl
| Download URL | napari_samv2-0.1.3-py3-none-any.whl |
|---|---|
| Size | 13.8 kB |
| Tags | Python 3 |
|
SHA-256 checksum How to use checksums |
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Uploaded using Trusted Publishing? What is trusted publishing? |
No |
| Uploaded via |
twine/6.2.0 CPython/3.13.7
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