openwholeslide 0.2.0

Wrapper around tifffile library to have the same API as OpenSlide.

openwholeslide

Wrapper around tifffile library to have the same API as OpenSlide.

Installation

$ pip install openwholeslide

Usage

• Similarly to OpenSlide, the openwholeslide package allows to load a WSI as follows:

import openwholeslide as ows

wsi = ows.WholeSlide(path="/path/to/wsi")

• Regions can be extracted from this WholeSlide object. For example, a lower resolution of the full scale WSI can be extracted as follows:

region = wsi.read_full(magnification=1.0)

• This actually performs a lazy loading which does not load the data information. In order to get access to the region's pixels (as an numpy.ndarray), the following property should be called:

img = region.as_ndarray

Contributing

Interested in contributing? Check out the contributing guidelines. Please note that this project is released with a Code of Conduct. By contributing to this project, you agree to abide by its terms.

License

openwholeslide was created by Arthur Elskens and Adrien Foucart. It is licensed under the terms of the MIT license.