WSI Reader
A plugin to read whole slide images within napari.
This napari plugin provides a reader for various whole slide image formats.
By default, any of the following formats is read using the tifffile library.
If the image file contains a tag GDAL_METADATA, the rasterio library is used
instead.
- .bif
- .ndpi
- .qptiff
- .scn
- .svs
- .tif
- .tiff
From the terminal:
napari CMU-1.svsFrom python:
import napari
viewer = napari.Viewer()
viewer.open("CMU-1.svs")Version:
- 0.1.3
Last updated:
- 22 August 2023
First released:
- 01 February 2023
License:
- Apache-2.0
Supported data:
- Information not submitted
Plugin type:
GitHub activity:
- Stars: 8
- Forks: 1
- Issues + PRs: 0
GitHub activity:
- Stars: 8
- Forks: 1
- Issues + PRs: 0
Requirements:
- dask (>=2022)
- imagecodecs (>=2022)
- magicgui (<1.0.0)
- matplotlib (>=3.0.0,<4.0.0)
- napari (>=0.4.0,<0.5.0)
- numpy (>=1.0.0,<2.0.0)
- pydantic (!=1.10.0)
- rasterio (>=1.0.0,<2.0.0)
- tifffile (>=2022)
- zarr (>=2.0.0,<3.0.0)