Deep Analysis of CNN Settings for New Cancer whole-slide Histological Images Segmentation: the Case of Small Training Sets

Accurate analysis and interpretation of stained biopsy images is a crucial step in the cancer diagnostic routine which is mainly done manually by expert pathologists. The recent progress of digital pathology gives us a challenging opportunity to automatically process these complex image data in order to retrieve essential information and to study tissue elements and structures. This paper addresses the task of tissue-level segmentation in intermediate resolution of histopathological breast cancer images. Firstly, we present a new medical dataset we developed which is composed of hematoxylin and eosin stained whole-slide images wherein all 7 tissues were labeled by hand and validated by expert pathologist. Then, with this unique dataset, we proposed an automatic end-to-end framework using deep neural network for tissue-level segmentation. Moreover, we provide a deep analysis of the framework settings that can be used in similar task by the scientific community