383 research outputs found
Keypoint Transfer for Fast Whole-Body Segmentation
We introduce an approach for image segmentation based on sparse
correspondences between keypoints in testing and training images. Keypoints
represent automatically identified distinctive image locations, where each
keypoint correspondence suggests a transformation between images. We use these
correspondences to transfer label maps of entire organs from the training
images to the test image. The keypoint transfer algorithm includes three steps:
(i) keypoint matching, (ii) voting-based keypoint labeling, and (iii)
keypoint-based probabilistic transfer of organ segmentations. We report
segmentation results for abdominal organs in whole-body CT and MRI, as well as
in contrast-enhanced CT and MRI. Our method offers a speed-up of about three
orders of magnitude in comparison to common multi-atlas segmentation, while
achieving an accuracy that compares favorably. Moreover, keypoint transfer does
not require the registration to an atlas or a training phase. Finally, the
method allows for the segmentation of scans with highly variable field-of-view.Comment: Accepted for publication at IEEE Transactions on Medical Imagin
Deep Networks and Random Forests for Semantic Segmentation on 3D Data
This work focus on semantic segmentation over 3D data,firstly by research and study of the state of the art, then by developing methods to transfer features between FuseNet and 3D Entangled Forests.We were able to obtain meaningful insights with regards to the dataset and used learning models, pointing out a possible saturation of the performance due to their combination.We successfully demonstrated usefulness of transferring features and their usability obtaining a performance improvement.ope
A Survey on Deep Learning-based Architectures for Semantic Segmentation on 2D images
Semantic segmentation is the pixel-wise labelling of an image. Since the
problem is defined at the pixel level, determining image class labels only is
not acceptable, but localising them at the original image pixel resolution is
necessary. Boosted by the extraordinary ability of convolutional neural
networks (CNN) in creating semantic, high level and hierarchical image
features; excessive numbers of deep learning-based 2D semantic segmentation
approaches have been proposed within the last decade. In this survey, we mainly
focus on the recent scientific developments in semantic segmentation,
specifically on deep learning-based methods using 2D images. We started with an
analysis of the public image sets and leaderboards for 2D semantic
segmantation, with an overview of the techniques employed in performance
evaluation. In examining the evolution of the field, we chronologically
categorised the approaches into three main periods, namely pre-and early deep
learning era, the fully convolutional era, and the post-FCN era. We technically
analysed the solutions put forward in terms of solving the fundamental problems
of the field, such as fine-grained localisation and scale invariance. Before
drawing our conclusions, we present a table of methods from all mentioned eras,
with a brief summary of each approach that explains their contribution to the
field. We conclude the survey by discussing the current challenges of the field
and to what extent they have been solved.Comment: Updated with new studie
Mixing Deep Networks and Entangled Forests for the Semantic Segmentation of 3D Indoor Scenes
This work focuses on semantic segmentation over indoor 3D data, that is, to assign labels to every point in the point clouds representing working spaces: after researching the current state of the art, traditional approaches like random forests and deep neural networks based on PointNet are evaluated. The Superpoint Graph architecture and the 3D Entangled Forests algorithm are selected for mixing their features to try to enhance their performance
Recommended from our members
Dynamic low-level context for the detection of mild traumatic brain injury.
Mild traumatic brain injury (mTBI) appears as low contrast lesions in magnetic resonance (MR) imaging. Standard automated detection approaches cannot detect the subtle changes caused by the lesions. The use of context has become integral for the detection of low contrast objects in images. Context is any information that can be used for object detection but is not directly due to the physical appearance of an object in an image. In this paper, new low-level static and dynamic context features are proposed and integrated into a discriminative voxel-level classifier to improve the detection of mTBI lesions. Visual features, including multiple texture measures, are used to give an initial estimate of a lesion. From the initial estimate novel proximity and directional distance, contextual features are calculated and used as features for another classifier. This feature takes advantage of spatial information given by the initial lesion estimate using only the visual features. Dynamic context is captured by the proposed posterior marginal edge distance context feature, which measures the distance from a hard estimate of the lesion at a previous time point. The approach is validated on a temporal mTBI rat model dataset and shown to have improved dice score and convergence compared to other state-of-the-art approaches. Analysis of feature importance and versatility of the approach on other datasets are also provided
A mathematical framework for combining decisions of multiple experts toward accurate and remote diagnosis of malaria using tele-microscopy.
We propose a methodology for digitally fusing diagnostic decisions made by multiple medical experts in order to improve accuracy of diagnosis. Toward this goal, we report an experimental study involving nine experts, where each one was given more than 8,000 digital microscopic images of individual human red blood cells and asked to identify malaria infected cells. The results of this experiment reveal that even highly trained medical experts are not always self-consistent in their diagnostic decisions and that there exists a fair level of disagreement among experts, even for binary decisions (i.e., infected vs. uninfected). To tackle this general medical diagnosis problem, we propose a probabilistic algorithm to fuse the decisions made by trained medical experts to robustly achieve higher levels of accuracy when compared to individual experts making such decisions. By modelling the decisions of experts as a three component mixture model and solving for the underlying parameters using the Expectation Maximisation algorithm, we demonstrate the efficacy of our approach which significantly improves the overall diagnostic accuracy of malaria infected cells. Additionally, we present a mathematical framework for performing 'slide-level' diagnosis by using individual 'cell-level' diagnosis data, shedding more light on the statistical rules that should govern the routine practice in examination of e.g., thin blood smear samples. This framework could be generalized for various other tele-pathology needs, and can be used by trained experts within an efficient tele-medicine platform
Beyond KernelBoost
In this Technical Report we propose a set of improvements with respect to the
KernelBoost classifier presented in [Becker et al., MICCAI 2013]. We start with
a scheme inspired by Auto-Context, but that is suitable in situations where the
lack of large training sets poses a potential problem of overfitting. The aim
is to capture the interactions between neighboring image pixels to better
regularize the boundaries of segmented regions. As in Auto-Context [Tu et al.,
PAMI 2009] the segmentation process is iterative and, at each iteration, the
segmentation results for the previous iterations are taken into account in
conjunction with the image itself. However, unlike in [Tu et al., PAMI 2009],
we organize our recursion so that the classifiers can progressively focus on
difficult-to-classify locations. This lets us exploit the power of the
decision-tree paradigm while avoiding over-fitting. In the context of this
architecture, KernelBoost represents a powerful building block due to its
ability to learn on the score maps coming from previous iterations. We first
introduce two important mechanisms to empower the KernelBoost classifier,
namely pooling and the clustering of positive samples based on the appearance
of the corresponding ground-truth. These operations significantly contribute to
increase the effectiveness of the system on biomedical images, where texture
plays a major role in the recognition of the different image components. We
then present some other techniques that can be easily integrated in the
KernelBoost framework to further improve the accuracy of the final
segmentation. We show extensive results on different medical image datasets,
including some multi-label tasks, on which our method is shown to outperform
state-of-the-art approaches. The resulting segmentations display high accuracy,
neat contours, and reduced noise
Combining Shape and Learning for Medical Image Analysis
Automatic methods with the ability to make accurate, fast and robust assessments of medical images are highly requested in medical research and clinical care. Excellent automatic algorithms are characterized by speed, allowing for scalability, and an accuracy comparable to an expert radiologist. They should produce morphologically and physiologically plausible results while generalizing well to unseen and rare anatomies. Still, there are few, if any, applications where today\u27s automatic methods succeed to meet these requirements.\ua0The focus of this thesis is two tasks essential for enabling automatic medical image assessment, medical image segmentation and medical image registration. Medical image registration, i.e. aligning two separate medical images, is used as an important sub-routine in many image analysis tools as well as in image fusion, disease progress tracking and population statistics. Medical image segmentation, i.e. delineating anatomically or physiologically meaningful boundaries, is used for both diagnostic and visualization purposes in a wide range of applications, e.g. in computer-aided diagnosis and surgery.The thesis comprises five papers addressing medical image registration and/or segmentation for a diverse set of applications and modalities, i.e. pericardium segmentation in cardiac CTA, brain region parcellation in MRI, multi-organ segmentation in CT, heart ventricle segmentation in cardiac ultrasound and tau PET registration. The five papers propose competitive registration and segmentation methods enabled by machine learning techniques, e.g. random decision forests and convolutional neural networks, as well as by shape modelling, e.g. multi-atlas segmentation and conditional random fields
Narrowing the Gap: Random Forests In Theory and In Practice
Despite widespread interest and practical use, the theoretical properties of
random forests are still not well understood. In this paper we contribute to
this understanding in two ways. We present a new theoretically tractable
variant of random regression forests and prove that our algorithm is
consistent. We also provide an empirical evaluation, comparing our algorithm
and other theoretically tractable random forest models to the random forest
algorithm used in practice. Our experiments provide insight into the relative
importance of different simplifications that theoreticians have made to obtain
tractable models for analysis.Comment: Under review by the International Conference on Machine Learning
(ICML) 201
- …