napari-griottes
Use 🍒 Griottes 🍒 in napari!
Installation
Install from napari
You can install napari-griottes via pip:
pip install napari-griottes
To install latest development version :
pip install git+https://github.com/BaroudLab/napari-griottes.git
Usage
Starting with labels:
- Open the plugin in Plugins/napari-griottes
- Make sure the layer with labels is selected
- Click Run once to get centers
- Click Run second time to get graph
- Select the right kind of graph in the drop-down menu
- Adjust the distance
- Adjust thickness
Starting with Segmented cells
- Open sample data: File / Open Sample / napari-griottes / Zebrafish 2D with labels
- Select the top layer and covert it to labels (right click - Convert to labels)
- Run the plugin once to get the centers of labels
- Run the plugin twice to get the connections
- Proceed with graph creation
Saving and recovering the graph
Any graph you see in napari can be saved in .json format.
- Select he layers with connections
- Click File/Save Selected Layer
- Choose Griottes in drop-down menu
- Save
In order to recover a previously saved graph in napari, you can simply drag-n-drop your file into napari, or use file open fialog.
Contributing
Contributions are very welcome. Tests can be run with tox, please ensure the coverage at least stays the same before you submit a pull request.
License
Distributed under the terms of the BSD-3 license, "napari-griottes" is free and open source software
Issues
If you encounter any problems, please file an issue along with a detailed description.
1 maintainer
Metadata
1 maintainer
Release files for napari-griottes 0.4.1
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | Provenance | Actions |
|---|---|---|---|---|
| napari_griottes-0.4.1.tar.gz | 18.6 kB | Without provenance | Details for napari_griottes-0.4.1.tar.gz |
Built distribution (wheel)
| File | Interpreter | ABI | Platform | Actions Reset |
|---|---|---|---|---|
| napari_griottes-0.4.1-py3-none-any.whl | Python 3 | none | any | Details for napari_griottes-0.4.1-py3-none-any.whl |
Total release size: 33.2 kB
Release files / napari_griottes-0.4.1.tar.gz
| Download URL | napari_griottes-0.4.1.tar.gz |
|---|---|
| Size | 18.6 kB |
| Tags | Source |
|
SHA-256 checksum How to use checksums |
7fefccb63fd1f2247e220ad60bd0e83ff14a54af51f09111bbb9844dbdd2ec2f
|
|
BLAKE2b-256 checksum How to use checksums |
fbb53870dc0a8e38d37e91aebe6dc7d7515906bfef641d5c31144e28239ad29e
|
| Upload date | |
|
Uploaded using Trusted Publishing? What is trusted publishing? |
No |
| Uploaded via |
twine/4.0.2 CPython/3.11.3
|
Release files / napari_griottes-0.4.1-py3-none-any.whl
| Download URL | napari_griottes-0.4.1-py3-none-any.whl |
|---|---|
| Size | 14.6 kB |
| Tags | Python 3 |
|
SHA-256 checksum How to use checksums |
751c4dc3e45e6747b2595e5d3aa6ae30c1c897f6fe510b694c5dc47e817f25e3
|
|
BLAKE2b-256 checksum How to use checksums |
196ced457fd423022f6fd25ac6db5541972dbd1dffcb67055ce40ff522b00b5d
|
| Upload date | |
|
Uploaded using Trusted Publishing? What is trusted publishing? |
No |
| Uploaded via |
twine/4.0.2 CPython/3.11.3
|
Security for napari-griottes 0.4.1
Provenance
Provenance describes where a file came from. On PyPI, provenance is shared via attestations, which provide a verifiable record of the build or publishing details. View details, limitations and caveats.
No provenance found
None of the files in this release were uploaded with provenance metadata.
A note on package security
PyPI is a repository for distributing packages, not a service for auditing them. While third-party security researchers and our staff do their best to detect and remove malicious packages, PyPI cannot guarantee the quality, security or suitability of any given package.
To learn more about protecting yourself from malicious actors, visit our package security documentation.
