.gitignore
.travis.yml
README.md
changelog.md
environment.yml
requirements_conda.txt
requirements_tested.txt
setup.cfg
setup.py
conda-recipe/bld.bat
conda-recipe/build.sh
conda-recipe/meta.yaml
devel/annotations_in_dir_to_json.ipynb
devel/cnn_use.ipynb
devel/load_openslides.ipynb
devel/load_openslides_and_lxml_together.ipynb
devel/lobulus_localization.ipynb
devel/merge_image_data_and_json_annotation.ipynb
devel/parse_annotations_with_lxml.ipynb
devel/texture_analysis.ipynb
devel/texture_extract_training_data.ipynb
graphics/scaffan_icon.svg
graphics/scaffan_icon512.png
scaffan/SNI_area_regressor.joblib
scaffan/SNI_per-pixel_regressor.joblib
scaffan/__init__.py
scaffan/__main__.py
scaffan/algorithm.py
scaffan/ann_to_json.py
scaffan/annotation.py
scaffan/app_tools.py
scaffan/dilipg.py
scaffan/evaluation.py
scaffan/image.py
scaffan/image_czi.py
scaffan/image_intensity_rescale.py
scaffan/image_intensity_rescale_pyqtgraph.py
scaffan/libfixer.py
scaffan/lobule_quality_estimation_cnn.py
scaffan/lobulus.py
scaffan/main_cli.py
scaffan/os_interaction.py
scaffan/posenet_highLR.model
scaffan/pyqt_widgets.py
scaffan/qtexceptionhook.py
scaffan/scaffan_icon256.png
scaffan/scaffan_icon512.ico
scaffan/segmentation_model.pkl
scaffan/segmentation_model_default.pkl
scaffan/skeleton_analysis.py
scaffan/slide_segmentation.py
scaffan/sni_prediction.py
scaffan/texture.py
scaffan/texture_lbp.py
scaffan/whole_slide_seg_unet.py
scaffan.egg-info/PKG-INFO
scaffan.egg-info/SOURCES.txt
scaffan.egg-info/dependency_links.txt
scaffan.egg-info/top_level.txt
tests/image_test.py
tests/lobulus_test.py
tests/main_test.py
tests/parse_annotation_test.py
tests/process_json_annotation_test.py
tests/texture_test.py