Abstract
Variations in hematoxylin and eosin (H&E) stained images (due to clinical lab protocols, scanners, etc) directly impact the quality and accuracy of clinical diagnosis, and hence it is important to control for these variations for a reliable diagnosis. In this work, we present a new approach based on the multimarginal Wasserstein barycenter to normalize and augment H&E stained images given one or more references. Specifically, we provide a mathematically robust way of naturally incorporating additional images as intermediate references to drive stain normalization and augmentation simultaneously. The presented approach showed superior results quantitatively and qualitatively as compared to state-of-the-art methods for stain normalization. We further validated our stain normalization and augmentations in the nuclei segmentation task on a publicly available dataset, achieving state-of-the-art results against competing approaches.