SAMHI/resources/CellViT/example/preprocessing_example.yaml

# dataset paths
wsi_paths: ./example/TCGA-V5-A7RE-11A-01-TS1.57401526-EF9E-49AC-8FF6-B4F9652311CE.svs
output_path: ./example/output/preprocessing

# basic setups
patch_size: 1024
patch_overlap: 6.25
target_mag: 40
processes: 8
overwrite: True

# macenko stain normalization
normalize_stains: True

# finding patches
min_intersection_ratio: 0.05