--- a +++ b/README.md @@ -0,0 +1,38 @@ +WSITools +========= + + + +Tools to aid Digital pathology deep learning projects. + +* Free software: MIT license +* Documentation: https://wsitools.readthedocs.io/en/latest/index.html + +Features +-------- +WSITools is a whole slide image processing toolkit. It provides efficient ways to extract patches from whole slide +images, and some other useful features for pathological image processing. +Currently, it supports four patch extraction scenarios: +1. Extract patches from WSIs +2. Extract patches from WSIs and their label (i.e. their directory name) + 1. TODO: Incomplete +3. Extract patches from a fixed and a float WSI +4. Extract patches from a fixed and a float WSI in places that intersect annotation objects + 1. TODO: Incomplete + +## Additional Features +1. Detect tissue in a WSI +2. Export and parsing annotation from [QuPath](https://qupath.github.io/) and [Aperio Image Scope](https://www.leicabiosystems.com/digital-pathology/manage/aperio-imagescope/) +3. WSI registration for image pairs [[Paper]](https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0220074) +4. Reconstruct WSI from the processed image patches + +Credits +------- + +This package was created with Cookiecutter_ and the `audreyr/cookiecutter-pypackage`_ project template. + +.. _Cookiecutter: https://github.com/audreyr/cookiecutter +.. _`audreyr/cookiecutter-pypackage`: https://github.com/audreyr/cookiecutter-pypackage + +-------- +