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Slideflow: A Unified Deep Learning Pipeline for Digital Histology

Authors: Dolezal, James; Kochanny, Sara; Howard, Frederick;

Slideflow: A Unified Deep Learning Pipeline for Digital Histology

Abstract

Slideflow provides a unified API for building and testing deep learning models for digital pathology, supporting both Tensorflow and PyTorch. Slideflow includes tools for whole-slide image processing and tile extraction, customizable deep learning model training with dozens of supported architectures, explainability tools including heatmaps, mosaic maps, GANs, and saliency maps, analysis of activations from model layers, uncertainty quantification, and more. A variety of fast, optimized whole-slide image processing tools are included, including background filtering, blur/artifact detection, stain normalization, and efficient storage in *.tfrecords format. Model training is easy and highly configurable, with an easy drop-in API for training custom architectures. For external training loops, Slideflow can be used as an image processing backend, serving an optimized tf.data.Dataset or torch.utils.data.DataLoader to read and process slide images and perform real-time stain normalization.

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selected citations
These citations are derived from selected sources.
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
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popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
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