├── IBMIL_clustering.py ├── LICENSE ├── README.md ├── Step1_create_patches_fp.py ├── Step2_feature_extract.py ├── Step3_WSI_classification.py ├── Step3_WSI_classification_ACMIL.py ├── Step3_WSI_classification_DTFD.py ├── Step3_WSI_classification_IBMIL.py ├── Step3_WSI_classification_MHIM.py ├── Step4_visualize_heatmap_camelyon.py ├── __init__.py ├── __pycache__ └── models.cpython-310.pyc ├── architecture ├── Attention.py ├── __init__.py ├── __pycache__ │ ├── Attention.cpython-310.pyc │ ├── __init__.cpython-310.pyc │ ├── __init__.cpython-38.pyc │ ├── network.cpython-310.pyc │ ├── network.cpython-38.pyc │ ├── nystrom_attention.cpython-310.pyc │ ├── nystrom_attention.cpython-38.pyc │ ├── transformer.cpython-310.pyc │ └── transformer.cpython-38.pyc ├── attmil.py ├── bmil.py ├── clam.py ├── dsmil.py ├── ibmil.py ├── ilra.py ├── ips_net.py ├── lbmil.py ├── linear_vdo.py ├── mean_max.py ├── mhim.py ├── network.py ├── nystrom_attention.py ├── transMIL.py └── transformer.py ├── config ├── bracs_config.yml ├── bracs_medical_ssl_config.yml ├── bracs_natural_supervised_config.yml ├── camelyon17_config.yml ├── camelyon17_medical_ssl_config.yml ├── camelyon_config.yml ├── camelyon_medical_ssl_config.yml ├── camelyon_natural_supervised_config.yml ├── huaxi_medical_ssl_config.yml ├── lct_config.yml ├── lct_medical_ssl_config.yml ├── lct_natural_supervised_config.yml ├── patch_classification_bracs_config.yml └── patch_classification_camelyon_config.yml ├── dataset_csv ├── EC.csv ├── EC2.csv ├── bracs.csv ├── brca_hipt.csv ├── camelyon16.csv ├── camelyon17.csv ├── tumor_subtyping_dummy_clean.csv └── tumor_vs_normal_dummy_clean.csv ├── datasets ├── __pycache__ │ ├── dataset_h5.cpython-310.pyc │ ├── datasets.cpython-310.pyc │ └── datasets.cpython-38.pyc ├── dataset_h5.py └── datasets.py ├── engine.py ├── models.py ├── modules ├── __pycache__ │ ├── emb_position.cpython-310.pyc │ └── emb_position.cpython-38.pyc ├── attmil.py ├── clam.py ├── datten.py ├── dsmil.py ├── emb_position.py ├── mean_max.py ├── mhim.py ├── mlp.py ├── nystrom_attention.py ├── satten.py └── topk │ ├── functional.py │ ├── logarithm.py │ └── polynomial │ ├── divide_conquer.py │ ├── grad.py │ ├── multiplication.py │ └── sp.py ├── requirements.txt ├── splits └── camelyon │ ├── split_1.json │ ├── split_2.json │ ├── split_3.json │ ├── split_4.json │ └── split_5.json ├── utils ├── __pycache__ │ ├── file_utils.cpython-310.pyc │ ├── utils.cpython-310.pyc │ └── utils.cpython-38.pyc ├── file_utils.py └── utils.py └── wsi_core ├── AlgorithmUtils.py ├── KfbSlide ├── ImageOperationLib.dll ├── __init__.py ├── __pycache__ │ ├── __init__.cpython-310.pyc │ ├── kfb_deepzoom.cpython-310.pyc │ ├── kfb_lowlevel.cpython-310.pyc │ └── kfbslide.cpython-310.pyc ├── kfb_deepzoom.py ├── kfb_lowlevel.py ├── kfbslide.py ├── libImageOperationLib.so ├── libkfbslide.dll ├── libkfbslide.so └── msvcp100.dll ├── LRUCacheDict.py ├── OtherSlide ├── __init__.py ├── __pycache__ │ └── __init__.cpython-310.pyc ├── openslide │ ├── __init__.py │ ├── __pycache__ │ │ ├── __init__.cpython-310.pyc │ │ ├── _version.cpython-310.pyc │ │ ├── deepzoom.cpython-310.pyc │ │ └── lowlevel.cpython-310.pyc │ ├── _convert.cp35-win_amd64.pyd │ ├── _version.py │ ├── deepzoom.py │ └── lowlevel.py └── openslidec │ ├── iconv.dll │ ├── libcairo-2.dll │ ├── libffi-6.dll │ ├── libgdk_pixbuf-2.0-0.dll │ ├── libgio-2.0-0.dll │ ├── libglib-2.0-0.dll │ ├── libgmodule-2.0-0.dll │ ├── libgobject-2.0-0.dll │ ├── libgthread-2.0-0.dll │ ├── libintl-8.dll │ ├── libjpeg-62.dll │ ├── libopenjp2.dll │ ├── libopenslide-0.dll │ ├── libpixman-1-0.dll │ ├── libpng16-16.dll │ ├── libsqlite3-0.dll │ ├── libtiff-5.dll │ ├── libxml2-2.dll │ ├── libzip.dll │ ├── openslide-jni.dll │ ├── openslide-quickhash1sum.exe │ ├── openslide-show-properties.exe │ ├── openslide-write-png.exe │ ├── openslide.jar │ └── zlib1.dll ├── SlideBase.py ├── WholeSlideImage.py ├── __init__.py ├── __pycache__ ├── LRUCacheDict.cpython-310.pyc ├── SlideBase.cpython-310.pyc ├── 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