cbm24sasnil
Reimplementation of CBM'24 paper Unsupervised Domain Adaptation for Histopathology Image Segmentation with Incomplete Labels
Science Score: 67.0%
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Repository
Reimplementation of CBM'24 paper Unsupervised Domain Adaptation for Histopathology Image Segmentation with Incomplete Labels
Basic Info
- Host: GitHub
- Owner: iTomxy
- License: mit
- Language: Python
- Default Branch: main
- Size: 146 KB
Statistics
- Stars: 0
- Watchers: 1
- Forks: 0
- Open Issues: 0
- Releases: 0
Metadata Files
README.md
This repository contains an unofficial, partial implementation of paper:
Huihui Zhou, Yan Wang, Benyan Zhang, Chunhua Zhou, Maxim S. Vonsky, Lubov B. Mitrofanova, Duowu Zou, and Qingli Li. 2024. Unsupervised domain adaptation for histopathology image segmentation with incomplete labels. Comput. Biol. Med. 171, C (Mar 2024). https://doi.org/10.1016/j.compbiomed.2024.108226
I only implement its incomplete label correction stage as a baseline of incomplete label segmentation task. Also, I have NOT tested this implementation on its original dataset.
Backbone
The original paper uses DAFormer as its backbone, which is develop upon MMSegmentation. But it is hard to hack. Thus I instead use UNet from MONAI as backbone.
Data
See iTomxy/data/totalsegmentator.
Dependencies
- monai
- medpy >= 0.5.2
- nibabel
- ~~invertransforms~~
- scikit-image
Train & Test
shell
bash run.sh
Citation
If you find this repository helpful, please consider citing it as follows:
@software{Liang_Reimplementation_of_SASN-IL,
author = {Liang, Tianyou},
title = {Reimplementation of SASN-IL},
url = {https://github.com/iTomxy/cbm24sasnil},
version = {2024.8.17}
}
You can also export this BibTeX or APA format citation string via the Cite this repository at the right-side panel of this GitHub repository page.
You may also want to cite the original paper, see here.
Owner
- Name: iTom
- Login: iTomxy
- Kind: user
- Company: The Chinese University of Hong Kong (Shenzhen)
- Website: https://blog.csdn.net/HackerTom
- Repositories: 3
- Profile: https://github.com/iTomxy
tom.tyliang@gmail.com hackeritom@163.com
Citation (CITATION.cff)
cff-version: 1.2.0 message: "If you use this software, please cite it as below." authors: - family-names: "Liang" given-names: "Tianyou" orcid: "https://orcid.org/0000-0002-2213-3029" title: "Reimplementation of SASN-IL" version: 2024.8.17 date-released: 2024-8-187 url: "https://github.com/iTomxy/cbm24sasnil"
GitHub Events
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- Push event: 7
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- Push event: 7
Dependencies
- matplotlib *
- medpy >=0.5.2
- monai *
- nibabel *
- opencv-python *
- scikit-image *
- scipy *
- tensorboard *
- torch ==1.13.1
- torchvision ==0.14.1