tiatoolbox 0.2.1

Computational pathology toolbox developed by TIA Lab.

TIA Toolbox

Computational Pathology Toolbox developed by TIA Lab

Please try

python -m tiatoolbox -h

Getting Started

First, install OpenSlide here. Then, create and activate the conda environment:

pip

pip install -r requirements.txt

conda

conda env create --name tiatoolbox --file requirements.conda.yml
conda activate tiatoolbox

tiatoolbox --help

usage: tiatoolbox [-h] [--version] [--verbose VERBOSE]
                 {slide_info}
                 ...

positional arguments:
  {slide_info}
    slide_info          usage: python -m tiatoolbox slide_info -h

optional arguments:
  -h, --help            show this help message and exit
  --version             show program`s version number and exit
  --verbose VERBOSE

History

0.2.0 (2020-07-10)

Major and Feature Improvements

• Adds feature slide_info to read whole slide images and display meta data information
• Adds multiprocessing decorator TIAMultiProcess to allow running toolbox functions using multiprocessing.

Changes to API

• None

Bug Fixes and Other Changes

• Adds Sphinx Readthedocs support https://readthedocs.org/projects/tia-toolbox/ for stable and develop branches
• Adds code coverage tools to test the pytest coverage of the package
• Adds deepsource integration to highlight and fix bug risks, performance issues etc.
• Adds README to allow users to setup the environment.
• Adds conda and pip requirements instructions

0.1.0 (2020-05-28)

• First release on PyPI.