{"name":"napari-wsi","display_name":"WSI Reader","visibility":"public","icon":"","categories":[],"schema_version":"0.2.0","on_activate":null,"on_deactivate":null,"contributions":{"commands":[{"id":"napari-wsi.get_wsi_reader","title":"A reader for whole slide image data.","python_name":"napari_wsi.reader:get_wsi_reader","short_title":null,"category":null,"icon":null,"enablement":null},{"id":"napari-wsi.get_wsi_reader_widget","title":"A widget for reading whole slide image data.","python_name":"napari_wsi.widget:get_wsi_reader_widget","short_title":null,"category":null,"icon":null,"enablement":null}],"readers":[{"command":"napari-wsi.get_wsi_reader","filename_patterns":["*.bif","*.ndpi","*.qptiff","*.scn","*.svs","*.tif","*.tiff"],"accepts_directories":false}],"writers":null,"widgets":[{"command":"napari-wsi.get_wsi_reader_widget","display_name":"WSI Reader","autogenerate":false}],"sample_data":null,"themes":null,"menus":{},"submenus":null,"keybindings":null,"configuration":[]},"package_metadata":{"metadata_version":"2.1","name":"napari-wsi","version":"0.1.4","dynamic":null,"platform":null,"supported_platform":null,"summary":"A plugin to read whole slide images within napari.","description":"# napari-wsi\n\n[![PyPI](https://img.shields.io/pypi/v/napari-wsi.svg?color=green)](https://pypi.org/project/napari-wsi)\n[![napari hub](https://img.shields.io/endpoint?url=https://api.napari-hub.org/shields/napari-wsi)](https://napari-hub.org/plugins/napari-wsi)\n[![Tests](https://github.com/AstraZeneca/napari-wsi/actions/workflows/main.yml/badge.svg)](https://github.com/AstraZeneca/napari-wsi/actions)\n![Maturity Level-1](https://img.shields.io/badge/Maturity%20Level-ML--1-yellow)\n\nA plugin to read whole slide images within [napari].\n\n---\n\n## Installation\n\nYou can install `napari-wsi` via [pip]:\n\n```bash\npip install napari-wsi\n```\n\nTo install the latest development version, run:\n```bash\npip install git+https://github.com/AstraZeneca/napari-wsi.git\n```\n\n# Description\n\nThis [napari] plugin provides a reader for various whole slide image formats.\n\nBy default, any of the following formats is read using the [tifffile] library.\nIf the image file contains a tag `GDAL_METADATA`, the [rasterio] library is used\ninstead.\n\n- .bif\n- .ndpi\n- .qptiff\n- .scn\n- .svs\n- .tif\n- .tiff\n\n# Quickstart\n\nFrom the terminal:\n\n```bash\nnapari CMU-1.svs\n```\n\nFrom python:\n\n```python\nimport napari\n\nviewer = napari.Viewer()\nviewer.open(\"CMU-1.svs\")\n```\n\n[napari]: https://github.com/napari/napari\n[pip]: https://pypi.org/project/pip/\n[rasterio]: https://github.com/rasterio/rasterio\n[tifffile]: https://github.com/cgohlke/tifffile\n\n","description_content_type":"text/markdown","keywords":null,"home_page":"https://github.com/AstraZeneca/napari-wsi","download_url":null,"author":"Philipp Plewa","author_email":"philipp.plewa@astrazeneca.com","maintainer":"Philipp Plewa","maintainer_email":"philipp.plewa@astrazeneca.com","license":"Apache-2.0","classifier":["Framework :: napari","Intended Audience :: Developers","License :: OSI Approved :: Apache Software License","Operating System :: OS Independent","Programming Language :: Python :: 3","Programming Language :: Python :: 3.10","Programming Language :: Python :: 3.11","Topic :: Scientific/Engineering :: Image Processing"],"requires_dist":["dask[array] (>=2023)","imagecodecs (>=2023.9.18)","magicgui (>=0.7.3)","matplotlib (>=3.8)","napari (>=0.4.18)","numpy (>=1.26)","rasterio (>=1.3)","tifffile (>=2023)","zarr (>=2.16)"],"requires_python":">=3.10,<3.12","requires_external":null,"project_url":["Repository, https://github.com/AstraZeneca/napari-wsi"],"provides_extra":null,"provides_dist":null,"obsoletes_dist":null},"npe1_shim":false}