LICENSE
README.md
pyproject.toml
./atlas_patch/__init__.py
./atlas_patch/cli.py
./atlas_patch/configs/sam2.1_hiera_t.yaml
./atlas_patch/core/__init__.py
./atlas_patch/core/config.py
./atlas_patch/core/models.py
./atlas_patch/core/paths.py
./atlas_patch/core/wsi/__init__.py
./atlas_patch/core/wsi/image_wsi.py
./atlas_patch/core/wsi/iwsi.py
./atlas_patch/core/wsi/openslide_wsi.py
./atlas_patch/core/wsi/wsi_factory.py
./atlas_patch/models/patch/__init__.py
./atlas_patch/models/patch/base.py
./atlas_patch/models/patch/biomedclip.py
./atlas_patch/models/patch/chief_ctranspath.py
./atlas_patch/models/patch/clip.py
./atlas_patch/models/patch/conch.py
./atlas_patch/models/patch/convnext.py
./atlas_patch/models/patch/custom.py
./atlas_patch/models/patch/dinov2.py
./atlas_patch/models/patch/dinov3.py
./atlas_patch/models/patch/gigapath.py
./atlas_patch/models/patch/hibou.py
./atlas_patch/models/patch/hoptimus.py
./atlas_patch/models/patch/lunit.py
./atlas_patch/models/patch/medsiglip.py
./atlas_patch/models/patch/midnight.py
./atlas_patch/models/patch/musk.py
./atlas_patch/models/patch/omiclip.py
./atlas_patch/models/patch/openmidnight.py
./atlas_patch/models/patch/pathorchestra.py
./atlas_patch/models/patch/phikon.py
./atlas_patch/models/patch/plip.py
./atlas_patch/models/patch/quilt.py
./atlas_patch/models/patch/registry.py
./atlas_patch/models/patch/resnet.py
./atlas_patch/models/patch/uni.py
./atlas_patch/models/patch/virchow.py
./atlas_patch/models/patch/vit.py
./atlas_patch/orchestration/__init__.py
./atlas_patch/orchestration/parallel.py
./atlas_patch/orchestration/runner.py
./atlas_patch/services/__init__.py
./atlas_patch/services/extraction.py
./atlas_patch/services/feature_embedding.py
./atlas_patch/services/interfaces.py
./atlas_patch/services/mpp.py
./atlas_patch/services/segmentation.py
./atlas_patch/services/storage.py
./atlas_patch/services/visualization.py
./atlas_patch/services/wsi_loader.py
./atlas_patch/utils/__init__.py
./atlas_patch/utils/contours.py
./atlas_patch/utils/features.py
./atlas_patch/utils/h5.py
./atlas_patch/utils/hf.py
./atlas_patch/utils/image.py
./atlas_patch/utils/logging_utils.py
./atlas_patch/utils/params.py
./atlas_patch/utils/visualization/__init__.py
./atlas_patch/utils/visualization/contours.py
./atlas_patch/utils/visualization/mask.py
./atlas_patch/utils/visualization/patches.py
atlas_patch/__init__.py
atlas_patch/cli.py
atlas_patch.egg-info/PKG-INFO
atlas_patch.egg-info/SOURCES.txt
atlas_patch.egg-info/dependency_links.txt
atlas_patch.egg-info/entry_points.txt
atlas_patch.egg-info/requires.txt
atlas_patch.egg-info/top_level.txt
atlas_patch/configs/sam2.1_hiera_t.yaml
atlas_patch/core/__init__.py
atlas_patch/core/config.py
atlas_patch/core/models.py
atlas_patch/core/paths.py
atlas_patch/core/wsi/__init__.py
atlas_patch/core/wsi/image_wsi.py
atlas_patch/core/wsi/iwsi.py
atlas_patch/core/wsi/openslide_wsi.py
atlas_patch/core/wsi/wsi_factory.py
atlas_patch/models/patch/__init__.py
atlas_patch/models/patch/base.py
atlas_patch/models/patch/biomedclip.py
atlas_patch/models/patch/chief_ctranspath.py
atlas_patch/models/patch/clip.py
atlas_patch/models/patch/conch.py
atlas_patch/models/patch/convnext.py
atlas_patch/models/patch/custom.py
atlas_patch/models/patch/dinov2.py
atlas_patch/models/patch/dinov3.py
atlas_patch/models/patch/gigapath.py
atlas_patch/models/patch/hibou.py
atlas_patch/models/patch/hoptimus.py
atlas_patch/models/patch/lunit.py
atlas_patch/models/patch/medsiglip.py
atlas_patch/models/patch/midnight.py
atlas_patch/models/patch/musk.py
atlas_patch/models/patch/omiclip.py
atlas_patch/models/patch/openmidnight.py
atlas_patch/models/patch/pathorchestra.py
atlas_patch/models/patch/phikon.py
atlas_patch/models/patch/plip.py
atlas_patch/models/patch/quilt.py
atlas_patch/models/patch/registry.py
atlas_patch/models/patch/resnet.py
atlas_patch/models/patch/uni.py
atlas_patch/models/patch/virchow.py
atlas_patch/models/patch/vit.py
atlas_patch/orchestration/__init__.py
atlas_patch/orchestration/parallel.py
atlas_patch/orchestration/runner.py
atlas_patch/services/__init__.py
atlas_patch/services/extraction.py
atlas_patch/services/feature_embedding.py
atlas_patch/services/interfaces.py
atlas_patch/services/mpp.py
atlas_patch/services/segmentation.py
atlas_patch/services/storage.py
atlas_patch/services/visualization.py
atlas_patch/services/wsi_loader.py
atlas_patch/utils/__init__.py
atlas_patch/utils/contours.py
atlas_patch/utils/features.py
atlas_patch/utils/h5.py
atlas_patch/utils/hf.py
atlas_patch/utils/image.py
atlas_patch/utils/logging_utils.py
atlas_patch/utils/params.py
atlas_patch/utils/visualization/__init__.py
atlas_patch/utils/visualization/contours.py
atlas_patch/utils/visualization/mask.py
atlas_patch/utils/visualization/patches.py