27,788 research outputs found
EchoFusion: Tracking and Reconstruction of Objects in 4D Freehand Ultrasound Imaging without External Trackers
Ultrasound (US) is the most widely used fetal imaging technique. However, US
images have limited capture range, and suffer from view dependent artefacts
such as acoustic shadows. Compounding of overlapping 3D US acquisitions into a
high-resolution volume can extend the field of view and remove image artefacts,
which is useful for retrospective analysis including population based studies.
However, such volume reconstructions require information about relative
transformations between probe positions from which the individual volumes were
acquired. In prenatal US scans, the fetus can move independently from the
mother, making external trackers such as electromagnetic or optical tracking
unable to track the motion between probe position and the moving fetus. We
provide a novel methodology for image-based tracking and volume reconstruction
by combining recent advances in deep learning and simultaneous localisation and
mapping (SLAM). Tracking semantics are established through the use of a
Residual 3D U-Net and the output is fed to the SLAM algorithm. As a proof of
concept, experiments are conducted on US volumes taken from a whole body fetal
phantom, and from the heads of real fetuses. For the fetal head segmentation,
we also introduce a novel weak annotation approach to minimise the required
manual effort for ground truth annotation. We evaluate our method
qualitatively, and quantitatively with respect to tissue discrimination
accuracy and tracking robustness.Comment: MICCAI Workshop on Perinatal, Preterm and Paediatric Image analysis
(PIPPI), 201
A Replica Inference Approach to Unsupervised Multi-Scale Image Segmentation
We apply a replica inference based Potts model method to unsupervised image
segmentation on multiple scales. This approach was inspired by the statistical
mechanics problem of "community detection" and its phase diagram. Specifically,
the problem is cast as identifying tightly bound clusters ("communities" or
"solutes") against a background or "solvent". Within our multiresolution
approach, we compute information theory based correlations among multiple
solutions ("replicas") of the same graph over a range of resolutions.
Significant multiresolution structures are identified by replica correlations
as manifest in information theory overlaps. With the aid of these correlations
as well as thermodynamic measures, the phase diagram of the corresponding Potts
model is analyzed both at zero and finite temperatures. Optimal parameters
corresponding to a sensible unsupervised segmentation correspond to the "easy
phase" of the Potts model. Our algorithm is fast and shown to be at least as
accurate as the best algorithms to date and to be especially suited to the
detection of camouflaged images.Comment: 26 pages, 22 figure
Synchrotron-based visualization and segmentation of elastic lamellae in the mouse carotid artery during quasi-static pressure inflation
This dataset contains images that were obtained during quasi-static pressure inflation of mouse carotid arteries. Images were taken with phase propagation imaging at the X02DA TOMCAT beamline of the Swiss Light Source synchrotron at the Paul Scherrer Institute in Villigen, Switzerland. Scans of n=12 left carotid arteries (n-6 Apoe-deficient mice, n=6 wild-type mice, all on a C57Bl6J background) were taken at pressure levels of 0, 10, 20, 30, 40, 50, 70, 90 and 120 mmHg. For analysis we selected 75 images from the center of each stack (starting at the center of the stack, and skipping 2 of every three images in both cranial and caudal axial directions) for each sample and for each pressure level, resulting in a total of 75 x 12 x 9 = 8100 analyzed images from 108 different scans. Segmentation, 3D visualization and geometric analysis is presented in the corresponding manuscript. Files are uploaded in 16bit .tif format and are named: mouseid_pressurelevel_stacknumber, with mouseid consisting of either Apoe (Apoe-deficient) or Bl (wild-type) and the mouse number, pressurelevel varies from P0 to P120 and stacknumber indicates which image from the stack has been uploaded
Region-based segmentation of images using syntactic visual features
This paper presents a robust and efficient method for segmentation of images into large regions that reflect the real world objects present in the scene. We propose an extension to the well known Recursive Shortest Spanning Tree (RSST) algorithm based on a new color model and so-called syntactic features [1]. We introduce practical solutions, integrated within the RSST framework, to structure analysis based on the shape and spatial configuration of image regions. We demonstrate that syntactic features provide a
reliable basis for region merging criteria which prevent formation of regions spanning more than one semantic object, thereby significantly improving the perceptual quality of the output segmentation. Experiments indicate that the proposed features are generic in nature and allow satisfactory segmentation of real world images from various sources without adjustment to algorithm parameters
Active Mean Fields for Probabilistic Image Segmentation: Connections with Chan-Vese and Rudin-Osher-Fatemi Models
Segmentation is a fundamental task for extracting semantically meaningful
regions from an image. The goal of segmentation algorithms is to accurately
assign object labels to each image location. However, image-noise, shortcomings
of algorithms, and image ambiguities cause uncertainty in label assignment.
Estimating the uncertainty in label assignment is important in multiple
application domains, such as segmenting tumors from medical images for
radiation treatment planning. One way to estimate these uncertainties is
through the computation of posteriors of Bayesian models, which is
computationally prohibitive for many practical applications. On the other hand,
most computationally efficient methods fail to estimate label uncertainty. We
therefore propose in this paper the Active Mean Fields (AMF) approach, a
technique based on Bayesian modeling that uses a mean-field approximation to
efficiently compute a segmentation and its corresponding uncertainty. Based on
a variational formulation, the resulting convex model combines any
label-likelihood measure with a prior on the length of the segmentation
boundary. A specific implementation of that model is the Chan-Vese segmentation
model (CV), in which the binary segmentation task is defined by a Gaussian
likelihood and a prior regularizing the length of the segmentation boundary.
Furthermore, the Euler-Lagrange equations derived from the AMF model are
equivalent to those of the popular Rudin-Osher-Fatemi (ROF) model for image
denoising. Solutions to the AMF model can thus be implemented by directly
utilizing highly-efficient ROF solvers on log-likelihood ratio fields. We
qualitatively assess the approach on synthetic data as well as on real natural
and medical images. For a quantitative evaluation, we apply our approach to the
icgbench dataset
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