Aperio scanners generate a semi-proprietary file format called SVS. At its heart, SVS files are really a multi-page tiff file storing a pyramid of smaller tiff files of the original image. We’ll look at those here using a SVS file provided by the TCGA (http://cancergenome.nih.gov/) breast cancer cohort:
I’m trying out the stain normalization toolbox provided by the Department of Computer Science over at Warwick . Be fair warned, it’s a windows only, matlab, toolbox.
Continue reading Stain Normalization for Histology Images