Napari plugin for viewing Brain Image Library datasets
Project description
Description
This plugin enables viewing of datasets archived in the Brain Image Library.
https://www.brainimagelibrary.org/
**NOTE: This plugin is under early development. Currently, only a subset of single color, fMOST datasets which include projections are available to view. An example can be found here: https://download.brainimagelibrary.org/2b/da/2bdaf9e66a246844/mouseID_405429-182725/
Features
- Multiscale Rendering
- Datasets which include multiple resolution representations of the data can be used for https://download.brainimagelibrary.org/2b/da/2bdaf9e66a246844/mouseID_405429-182725/
- 3D rendering of whole datasets. The lowest resolution will be used for rendering.
- The plugin does NOT require a BIL account as datasets are already accessible via https.
Known Issues / limitations
- Currently the only datasets that are available are those which have been manually selected by the developers. If you would like a specific dataset to be included please consider adding the dataset(s) to the dataset_info.py file and submitting a pull request: https://github.com/brain-image-library/napari-bil-data-viewer/blob/main/napari_bil_data_viewer/dataset_info.py
- The plugin is still under development. We appreciate all reports of errors which occur during use. https://github.com/brain-image-library/napari-bil-data-viewer/issues
This napari plugin was generated with Cookiecutter using with @napari's cookiecutter-napari-plugin template.
Installation
Option #1: Install plugin via the napari plugin menu
- Menu: Plugins >> Install/Uninstall Plugins
- Search: napari-bil-data-viewer
- Select install
Option #2: Install a fresh python virtual environment
# Example of venv creation using conda
conda create -y -n bil-viewer python=3.8
conda activate bil-viewer
# Install napari-bil-data-viewer
pip install napari-bil-data-viewer
# Run Napari
napari
Change Log:
v0.1.0:
Initial release.
Contributing
Please consider contributing to this project! 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-bil-data-viewer" is free and open source software
Issues
If you encounter any problems, please file an issue along with a detailed description.
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