333 research outputs found
Context-based Normalization of Histological Stains using Deep Convolutional Features
While human observers are able to cope with variations in color and
appearance of histological stains, digital pathology algorithms commonly
require a well-normalized setting to achieve peak performance, especially when
a limited amount of labeled data is available. This work provides a fully
automated, end-to-end learning-based setup for normalizing histological stains,
which considers the texture context of the tissue. We introduce Feature Aware
Normalization, which extends the framework of batch normalization in
combination with gating elements from Long Short-Term Memory units for
normalization among different spatial regions of interest. By incorporating a
pretrained deep neural network as a feature extractor steering a pixelwise
processing pipeline, we achieve excellent normalization results and ensure a
consistent representation of color and texture. The evaluation comprises a
comparison of color histogram deviations, structural similarity and measures
the color volume obtained by the different methods.Comment: In: 3rd Workshop on Deep Learning in Medical Image Analysis (DLMIA
2017
Instance Segmentation of Dense and Overlapping Objects via Layering
Instance segmentation aims to delineate each individual object of interest in
an image. State-of-the-art approaches achieve this goal by either partitioning
semantic segmentations or refining coarse representations of detected objects.
In this work, we propose a novel approach to solve the problem via object
layering, i.e. by distributing crowded, even overlapping objects into different
layers. By grouping spatially separated objects in the same layer, instances
can be effortlessly isolated by extracting connected components in each layer.
In comparison to previous methods, our approach is not affected by complex
object shapes or object overlaps. With minimal post-processing, our method
yields very competitive results on a diverse line of datasets: C. elegans
(BBBC), Overlapping Cervical Cells (OCC) and cultured neuroblastoma cells
(CCDB). The source code is publicly available
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