├── LICENSE ├── README.md ├── ablation ├── 4_csco_train.py ├── configs │ ├── cs-co_conf_resnet18_0.1.ini │ ├── cs-co_conf_resnet18_0.5.ini │ ├── cs-co_conf_resnet18_1.0.ini │ ├── cs-co_conf_resnet18_10.0.ini │ ├── cs-co_conf_resnet18_5.0.ini │ ├── cs-co_conf_resnet18_no_svp.ini │ ├── cs-co_conf_resnet18_unfix.ini │ └── cs-co_conf_resnet50.ini ├── csco_dataset.py ├── csco_vahadane.py ├── dataset.py ├── eval.sh ├── linear_train.py ├── run_co.sh └── utils.py ├── data_preprocess ├── H_H_prime_generate.py └── csco_vahadane.py ├── figs └── framework.png ├── full_supervised_resnet ├── dataset.py ├── fsr_train.py ├── run.sh └── utils.py ├── linear_eval ├── dataset.py ├── eval.sh ├── linear_train.py ├── resnetv2.py └── utils.py ├── model ├── __init__.py ├── byol_simsiam.py ├── chen_MIA.py ├── cs_co.py ├── linear.py ├── model_parts.py ├── resnet.py └── xie_miccai.py └── train ├── .DS_Store ├── 1_byol_train.py ├── 1_byol_train_dist.py ├── 2_chen_train.py ├── 3_xie_train.py ├── 4_csco_train.py ├── 4_csco_train_dist.py ├── __pycache__ ├── byol_dataset.cpython-36.pyc ├── chen_dataset.cpython-36.pyc ├── csco_dataset.cpython-36.pyc ├── csco_vahadane.cpython-36.pyc ├── utils.cpython-36.pyc └── xie_dataset.cpython-36.pyc ├── byol_dataset.py ├── chen_dataset.py ├── configs ├── .DS_Store ├── NCT_CRC │ ├── byol_conf_resnet18.ini │ ├── byol_conf_resnet50.ini │ ├── chen_conf_resnet18.ini │ ├── chen_conf_resnet50.ini │ ├── cs-co_conf_resnet18.ini │ ├── cs-co_conf_resnet50.ini │ ├── cs_conf_resnet18.ini │ ├── cs_conf_resnet50.ini │ ├── simsiam_conf_resnet18.ini │ ├── simsiam_conf_resnet50.ini │ ├── xie_conf_resnet18.ini │ └── xie_conf_resnet50.ini ├── TCGA_LIHC │ ├── cs-co_conf.ini │ ├── cs_conf.ini │ └── simsiam_conf_resnet50.ini └── xiangya │ ├── cs-co_conf.ini │ ├── cs_conf.ini │ └── simsiam_conf_resnet50.ini ├── csco_dataset.py ├── csco_vahadane.py ├── run_byol_simsiam.sh ├── run_chen_xie.sh ├── run_co.sh ├── run_cs.sh ├── utils.py └── xie_dataset.py /LICENSE: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/LICENSE -------------------------------------------------------------------------------- /README.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/README.md -------------------------------------------------------------------------------- /ablation/4_csco_train.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/ablation/4_csco_train.py -------------------------------------------------------------------------------- /ablation/configs/cs-co_conf_resnet18_0.1.ini: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/ablation/configs/cs-co_conf_resnet18_0.1.ini -------------------------------------------------------------------------------- /ablation/configs/cs-co_conf_resnet18_0.5.ini: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/ablation/configs/cs-co_conf_resnet18_0.5.ini -------------------------------------------------------------------------------- /ablation/configs/cs-co_conf_resnet18_1.0.ini: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/ablation/configs/cs-co_conf_resnet18_1.0.ini -------------------------------------------------------------------------------- /ablation/configs/cs-co_conf_resnet18_10.0.ini: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/ablation/configs/cs-co_conf_resnet18_10.0.ini -------------------------------------------------------------------------------- /ablation/configs/cs-co_conf_resnet18_5.0.ini: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/ablation/configs/cs-co_conf_resnet18_5.0.ini -------------------------------------------------------------------------------- /ablation/configs/cs-co_conf_resnet18_no_svp.ini: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/ablation/configs/cs-co_conf_resnet18_no_svp.ini -------------------------------------------------------------------------------- /ablation/configs/cs-co_conf_resnet18_unfix.ini: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/ablation/configs/cs-co_conf_resnet18_unfix.ini -------------------------------------------------------------------------------- /ablation/configs/cs-co_conf_resnet50.ini: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/ablation/configs/cs-co_conf_resnet50.ini -------------------------------------------------------------------------------- /ablation/csco_dataset.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/ablation/csco_dataset.py -------------------------------------------------------------------------------- /ablation/csco_vahadane.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/ablation/csco_vahadane.py -------------------------------------------------------------------------------- /ablation/dataset.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/ablation/dataset.py -------------------------------------------------------------------------------- /ablation/eval.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/ablation/eval.sh -------------------------------------------------------------------------------- /ablation/linear_train.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/ablation/linear_train.py -------------------------------------------------------------------------------- /ablation/run_co.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/ablation/run_co.sh -------------------------------------------------------------------------------- /ablation/utils.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/ablation/utils.py -------------------------------------------------------------------------------- /data_preprocess/H_H_prime_generate.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/data_preprocess/H_H_prime_generate.py -------------------------------------------------------------------------------- /data_preprocess/csco_vahadane.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/data_preprocess/csco_vahadane.py -------------------------------------------------------------------------------- /figs/framework.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/figs/framework.png -------------------------------------------------------------------------------- /full_supervised_resnet/dataset.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/full_supervised_resnet/dataset.py -------------------------------------------------------------------------------- /full_supervised_resnet/fsr_train.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/full_supervised_resnet/fsr_train.py -------------------------------------------------------------------------------- /full_supervised_resnet/run.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/full_supervised_resnet/run.sh -------------------------------------------------------------------------------- /full_supervised_resnet/utils.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/full_supervised_resnet/utils.py -------------------------------------------------------------------------------- /linear_eval/dataset.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/linear_eval/dataset.py -------------------------------------------------------------------------------- /linear_eval/eval.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/linear_eval/eval.sh -------------------------------------------------------------------------------- /linear_eval/linear_train.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/linear_eval/linear_train.py -------------------------------------------------------------------------------- /linear_eval/resnetv2.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/linear_eval/resnetv2.py -------------------------------------------------------------------------------- /linear_eval/utils.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/linear_eval/utils.py -------------------------------------------------------------------------------- /model/__init__.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/model/__init__.py -------------------------------------------------------------------------------- /model/byol_simsiam.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/model/byol_simsiam.py -------------------------------------------------------------------------------- /model/chen_MIA.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/model/chen_MIA.py -------------------------------------------------------------------------------- /model/cs_co.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/model/cs_co.py -------------------------------------------------------------------------------- /model/linear.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/model/linear.py -------------------------------------------------------------------------------- /model/model_parts.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/model/model_parts.py -------------------------------------------------------------------------------- /model/resnet.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/model/resnet.py -------------------------------------------------------------------------------- /model/xie_miccai.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/model/xie_miccai.py -------------------------------------------------------------------------------- /train/.DS_Store: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/.DS_Store -------------------------------------------------------------------------------- /train/1_byol_train.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/1_byol_train.py -------------------------------------------------------------------------------- /train/1_byol_train_dist.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/1_byol_train_dist.py -------------------------------------------------------------------------------- /train/2_chen_train.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/2_chen_train.py -------------------------------------------------------------------------------- /train/3_xie_train.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/3_xie_train.py -------------------------------------------------------------------------------- /train/4_csco_train.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/4_csco_train.py -------------------------------------------------------------------------------- /train/4_csco_train_dist.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/4_csco_train_dist.py -------------------------------------------------------------------------------- /train/__pycache__/byol_dataset.cpython-36.pyc: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/__pycache__/byol_dataset.cpython-36.pyc -------------------------------------------------------------------------------- /train/__pycache__/chen_dataset.cpython-36.pyc: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/__pycache__/chen_dataset.cpython-36.pyc -------------------------------------------------------------------------------- /train/__pycache__/csco_dataset.cpython-36.pyc: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/__pycache__/csco_dataset.cpython-36.pyc -------------------------------------------------------------------------------- /train/__pycache__/csco_vahadane.cpython-36.pyc: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/__pycache__/csco_vahadane.cpython-36.pyc -------------------------------------------------------------------------------- /train/__pycache__/utils.cpython-36.pyc: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/__pycache__/utils.cpython-36.pyc -------------------------------------------------------------------------------- /train/__pycache__/xie_dataset.cpython-36.pyc: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/__pycache__/xie_dataset.cpython-36.pyc -------------------------------------------------------------------------------- /train/byol_dataset.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/byol_dataset.py -------------------------------------------------------------------------------- /train/chen_dataset.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/chen_dataset.py -------------------------------------------------------------------------------- /train/configs/.DS_Store: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/configs/.DS_Store -------------------------------------------------------------------------------- /train/configs/NCT_CRC/byol_conf_resnet18.ini: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/configs/NCT_CRC/byol_conf_resnet18.ini -------------------------------------------------------------------------------- /train/configs/NCT_CRC/byol_conf_resnet50.ini: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/configs/NCT_CRC/byol_conf_resnet50.ini -------------------------------------------------------------------------------- /train/configs/NCT_CRC/chen_conf_resnet18.ini: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/configs/NCT_CRC/chen_conf_resnet18.ini -------------------------------------------------------------------------------- /train/configs/NCT_CRC/chen_conf_resnet50.ini: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/configs/NCT_CRC/chen_conf_resnet50.ini -------------------------------------------------------------------------------- /train/configs/NCT_CRC/cs-co_conf_resnet18.ini: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/configs/NCT_CRC/cs-co_conf_resnet18.ini -------------------------------------------------------------------------------- /train/configs/NCT_CRC/cs-co_conf_resnet50.ini: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/configs/NCT_CRC/cs-co_conf_resnet50.ini -------------------------------------------------------------------------------- /train/configs/NCT_CRC/cs_conf_resnet18.ini: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/configs/NCT_CRC/cs_conf_resnet18.ini -------------------------------------------------------------------------------- /train/configs/NCT_CRC/cs_conf_resnet50.ini: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/configs/NCT_CRC/cs_conf_resnet50.ini -------------------------------------------------------------------------------- /train/configs/NCT_CRC/simsiam_conf_resnet18.ini: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/configs/NCT_CRC/simsiam_conf_resnet18.ini -------------------------------------------------------------------------------- /train/configs/NCT_CRC/simsiam_conf_resnet50.ini: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/configs/NCT_CRC/simsiam_conf_resnet50.ini -------------------------------------------------------------------------------- /train/configs/NCT_CRC/xie_conf_resnet18.ini: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/configs/NCT_CRC/xie_conf_resnet18.ini -------------------------------------------------------------------------------- /train/configs/NCT_CRC/xie_conf_resnet50.ini: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/configs/NCT_CRC/xie_conf_resnet50.ini -------------------------------------------------------------------------------- /train/configs/TCGA_LIHC/cs-co_conf.ini: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/configs/TCGA_LIHC/cs-co_conf.ini -------------------------------------------------------------------------------- /train/configs/TCGA_LIHC/cs_conf.ini: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/configs/TCGA_LIHC/cs_conf.ini -------------------------------------------------------------------------------- /train/configs/TCGA_LIHC/simsiam_conf_resnet50.ini: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/configs/TCGA_LIHC/simsiam_conf_resnet50.ini -------------------------------------------------------------------------------- /train/configs/xiangya/cs-co_conf.ini: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/configs/xiangya/cs-co_conf.ini -------------------------------------------------------------------------------- /train/configs/xiangya/cs_conf.ini: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/configs/xiangya/cs_conf.ini -------------------------------------------------------------------------------- /train/configs/xiangya/simsiam_conf_resnet50.ini: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/configs/xiangya/simsiam_conf_resnet50.ini -------------------------------------------------------------------------------- /train/csco_dataset.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/csco_dataset.py -------------------------------------------------------------------------------- /train/csco_vahadane.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/csco_vahadane.py -------------------------------------------------------------------------------- /train/run_byol_simsiam.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/run_byol_simsiam.sh -------------------------------------------------------------------------------- /train/run_chen_xie.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/run_chen_xie.sh -------------------------------------------------------------------------------- /train/run_co.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/run_co.sh -------------------------------------------------------------------------------- /train/run_cs.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/run_cs.sh -------------------------------------------------------------------------------- /train/utils.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/utils.py -------------------------------------------------------------------------------- /train/xie_dataset.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/easonyang1996/CS-CO/HEAD/train/xie_dataset.py --------------------------------------------------------------------------------