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e8ffeea
lots of refactoring; wsi to tiles with one method; removed lots of un…
Dec 28, 2019
d4762c1
util show functions take list of paths instead of one path now
Dec 28, 2019
9f103ab
tile_scoring_function added as parameter to tiles.WsiToTiles
Dec 28, 2019
4b8f3c4
added tiles.WsisToTilesMultithreaded to extract tiles from WSIs in pa…
Jan 2, 2020
9750754
added possibility to extract tiles from ROIs that are in a format lik…
Jan 10, 2020
32fe55b
bugfix
Jan 10, 2020
a4b480e
added possibility to define a tile naming function
Jan 17, 2020
030c825
bugfix
Jan 28, 2020
42c48a4
added methods to directly extract a tile from a wsi or pil image; add…
Feb 20, 2020
c8a0eaf
tiles can be extracted from specified level of wsi; a csv file with t…
Feb 21, 2020
5a1ab76
WsiOrROIToTilesand WsiOrROIToTilesMultithreaded now return pandas dat…
Feb 22, 2020
232d1e4
bugfix, if no top_tiles
Feb 22, 2020
f9a34b9
bugfix in tile get_tile_image_path if tile.tiles_folder_path is None
Feb 22, 2020
ba59912
fixed typo
Feb 22, 2020
5cb990a
bugfix when processing rois
Feb 22, 2020
fda0105
bugfix: because of .get() the WsiOrROIToTilesMultithreaded was blocke…
Feb 22, 2020
1f5147a
bugfix in tiles.tile_to_pil_tile
Apr 9, 2020
b2d6c67
added function to plot whole-slide image with overlay for every tile,…
Apr 16, 2020
207deb2
added missing imports
Apr 16, 2020
c861230
small referencing and naming fix
Apr 16, 2020
0f53a7a
added function that extracts a conversion factor from a whole-slide i…
Apr 17, 2020
8ceb8c2
tile extraction functions now have the option to return TileSummary o…
Apr 17, 2020
6d4cc67
bugfix, forgot to rename parameter
Apr 23, 2020
5446770
Create README.md
Apr 23, 2020
d582117
Update README.md
Apr 23, 2020
1e683ae
Update README.md
ChristophNeuner Nov 15, 2022
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32 changes: 4 additions & 28 deletions README.md
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<!--
{% comment %}
Licensed to the Apache Software Foundation (ASF) under one or more
contributor license agreements. See the NOTICE file distributed with
this work for additional information regarding copyright ownership.
The ASF licenses this file to you under the Apache License, Version 2.0
(the "License"); you may not use this file except in compliance with
the License. You may obtain a copy of the License at
# python-wsi-preprocessing
Python Whole Slide Image Processing pipeline

http://www.apache.org/licenses/LICENSE-2.0

Unless required by applicable law or agreed to in writing, software
distributed under the License is distributed on an "AS IS" BASIS,
WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
See the License for the specific language governing permissions and
limitations under the License.
{% endcomment %}
-->

# Python WSI Preprocessing

This project contains a variety of files for investigating image preprocessing using Python
with the aim of using deep learning to perform histopathology image classification of
whole slide images.

See main tutorial [here](./docs/wsi-preprocessing-in-python/index.md).

See main project at [https://github.com/CODAIT/deep-histopath](https://github.com/CODAIT/deep-histopath)
for more information.
Go to https://github.com/FAU-DLM/wsi_processing_pipelin for changes in this library.
All advances and new features will be committed there.
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