A package for extracting image patches from SVS files and performing color normalization
Project description
WSIdemerger
WSIdemerger is a Python package for extracting image patches from SVS files and performing color normalization.
Installation
You can install the package using pip:
pip install WSIdemerger
Usage
Extract Patches from SVS
from WSIdemerger.Patches_generation import extract_patches_from_svs
input_path = 'path_to_your_svs_file'
output_path = 'path_to_output_directory'
excel_path = 'path_to_output_excel_file'
patch_size = 512
target_magnification = 20
saturation_threshold = 50
extract_patches_from_svs(input_path, output_path, excel_path, patch_size, target_magnification, saturation_threshold)
Normalize Images
from WSIdemerger.Colour_standardisation import normalize_images
input_folder = 'path_to_input_images'
reference_image_path = 'path_to_reference_image'
output_folder = 'path_to_output_directory'
normalize_images(input_folder, reference_image_path, output_folder)
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