Source code for histomicstk.preprocessing.color_normalization.background_intensity

import numpy

from histomicstk.utils import sample_pixels


[docs] def background_intensity(*args, **kwargs): """Sample the background of the slide identified by slide_path to compute the background intensities in the RGB channels. Arguments are as in histomicstk.utils.sample_pixels, with background forced to True. Notes ----- The `magnification` parameter defaults to 1.25x, instead of the native scan magnification as in sample_pixels. """ if 'background' in kwargs: msg = '"background" argument may not be specified' raise ValueError(msg) kwargs['background'] = True if 'magnification' not in kwargs: kwargs['magnification'] = 1.25 sample = sample_pixels(*args, **kwargs) return numpy.median(sample, axis=0)