566 research outputs found
Machine learning methods for histopathological image analysis
Abundant accumulation of digital histopathological images has led to the
increased demand for their analysis, such as computer-aided diagnosis using
machine learning techniques. However, digital pathological images and related
tasks have some issues to be considered. In this mini-review, we introduce the
application of digital pathological image analysis using machine learning
algorithms, address some problems specific to such analysis, and propose
possible solutions.Comment: 23 pages, 4 figure
Scene Parsing with Multiscale Feature Learning, Purity Trees, and Optimal Covers
Scene parsing, or semantic segmentation, consists in labeling each pixel in
an image with the category of the object it belongs to. It is a challenging
task that involves the simultaneous detection, segmentation and recognition of
all the objects in the image.
The scene parsing method proposed here starts by computing a tree of segments
from a graph of pixel dissimilarities. Simultaneously, a set of dense feature
vectors is computed which encodes regions of multiple sizes centered on each
pixel. The feature extractor is a multiscale convolutional network trained from
raw pixels. The feature vectors associated with the segments covered by each
node in the tree are aggregated and fed to a classifier which produces an
estimate of the distribution of object categories contained in the segment. A
subset of tree nodes that cover the image are then selected so as to maximize
the average "purity" of the class distributions, hence maximizing the overall
likelihood that each segment will contain a single object. The convolutional
network feature extractor is trained end-to-end from raw pixels, alleviating
the need for engineered features. After training, the system is parameter free.
The system yields record accuracies on the Stanford Background Dataset (8
classes), the Sift Flow Dataset (33 classes) and the Barcelona Dataset (170
classes) while being an order of magnitude faster than competing approaches,
producing a 320 \times 240 image labeling in less than 1 second.Comment: 9 pages, 4 figures - Published in 29th International Conference on
Machine Learning (ICML 2012), Jun 2012, Edinburgh, United Kingdo
Deep learning in agriculture: A survey
Deep learning constitutes a recent, modern technique for image processing and data analysis, with promising results and large potential. As deep learning has been successfully applied in various domains, it has recently entered also the domain of agriculture. In this paper, we perform a survey of 40 research efforts that employ deep learning techniques, applied to various agricultural and food production challenges. We examine the particular agricultural problems under study, the specific models and frameworks employed, the sources, nature and pre-processing of data used, and the overall performance achieved according to the metrics used at each work under study. Moreover, we study comparisons of deep learning with other existing popular techniques, in respect to differences in classification or regression performance. Our findings indicate that deep learning provides high accuracy, outperforming existing commonly used image processing techniques.info:eu-repo/semantics/acceptedVersio
Deep learning in agriculture: A survey
Deep learning constitutes a recent, modern technique for image processing and
data analysis, with promising results and large potential. As deep learning has
been successfully applied in various domains, it has recently entered also the
domain of agriculture. In this paper, we perform a survey of 40 research
efforts that employ deep learning techniques, applied to various agricultural
and food production challenges. We examine the particular agricultural problems
under study, the specific models and frameworks employed, the sources, nature
and pre-processing of data used, and the overall performance achieved according
to the metrics used at each work under study. Moreover, we study comparisons of
deep learning with other existing popular techniques, in respect to differences
in classification or regression performance. Our findings indicate that deep
learning provides high accuracy, outperforming existing commonly used image
processing techniques
Open Source Software for Automatic Detection of Cone Photoreceptors in Adaptive Optics Ophthalmoscopy Using Convolutional Neural Networks
Imaging with an adaptive optics scanning light ophthalmoscope (AOSLO) enables direct visualization of the cone photoreceptor mosaic in the living human retina. Quantitative analysis of AOSLO images typically requires manual grading, which is time consuming, and subjective; thus, automated algorithms are highly desirable. Previously developed automated methods are often reliant on ad hoc rules that may not be transferable between different imaging modalities or retinal locations. In this work, we present a convolutional neural network (CNN) based method for cone detection that learns features of interest directly from training data. This cone-identifying algorithm was trained and validated on separate data sets of confocal and split detector AOSLO images with results showing performance that closely mimics the gold standard manual process. Further, without any need for algorithmic modifications for a specific AOSLO imaging system, our fully-automated multi-modality CNN-based cone detection method resulted in comparable results to previous automatic cone segmentation methods which utilized ad hoc rules for different applications. We have made free open-source software for the proposed method and the corresponding training and testing datasets available online
Self-Supervised Learning of Phenotypic Representations from Cell Images with Weak Labels
We propose WS-DINO as a novel framework to use weak label information in
learning phenotypic representations from high-content fluorescent images of
cells. Our model is based on a knowledge distillation approach with a vision
transformer backbone (DINO), and we use this as a benchmark model for our
study. Using WS-DINO, we fine-tuned with weak label information available in
high-content microscopy screens (treatment and compound), and achieve
state-of-the-art performance in not-same-compound mechanism of action
prediction on the BBBC021 dataset (98%), and not-same-compound-and-batch
performance (96%) using the compound as the weak label. Our method bypasses
single cell cropping as a pre-processing step, and using self-attention maps we
show that the model learns structurally meaningful phenotypic profiles
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