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Project description
Deep Learning Utilities for Pathology
Dlup offers a set of utilities to ease the process of running Deep Learning algorithms on Whole Slide Images.
Check the full documentation for more details on how to use dlup.
Features
- Dataset classes to handle whole-slide images in a tile-by-tile manner
- Annotation classes which can load GeoJSON, V7 Darwin, HALO and ASAP formats and convert these to masks.
- Command-line utilities to report on the metadata of WSIs, tile WSIs, and convert masks to polygons.
Quickstart
The package can be installed using python -m pip install dlup
.
Used by
- ahcore: a pytorch lightning based-library for computational pathology
Citing DLUP
If you use DLUP in your own research, please use the following BiBTeX entry:
@software{dlup,
author = {Teuwen, J., Romor, L., Pai, A., Schirris, Y., Marcus, E.},
month = {10},
title = {{DLUP: Deep Learning Utilities for Pathology}},
url = {https://github.com/nki-ai/dlup},
version = {0.3.31},
year = {2023}
}
or the following plain bibliography:
Teuwen, J., Romor, L., Pai, A., Schirris, Y., Marcus E. (2023). DLUP: Deep Learning Utilities for Pathology (Version 0.3.31) [Computer software]. https://github.com/nki-ai/dlup
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