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Two Point Minimum Cost Path Approach for CTA Coronary Centerline Extraction
Published in The MIDAS Journal
Published in The MIDAS Journal
In this work a minimum cost path approach is adopted to extract coronary artery centerlines from CTA data. The algorithm depends on the manual definition of the start and end point of the vessel. The cost image used in the minimal cost path approach is based [...]
This paper describes the ITK implementation of a minimal path extraction framework based on Fast Marching arrival functions. The method requires the user to provide three inputs: 1. a meaningful speed function to generate an arrival function, 2. path [...]
Connected Component and Morphology Based Extraction of Arterial Centerlines of the Heart (CocomoBeach)
Published in The MIDAS Journal
Published in The MIDAS Journal
This document describes a novel scheme for the automated extraction of the central lumen lines of
coronary arteries from computed tomography angiography (CTA) data. The scheme first obtains a seg-
mentation of the whole coronary tree and subsequently [...]
Real-time Tracking of the Left Ventricle in 3D Ultrasound Using Kalman Filter and Mean Value Coordinates
Published in The MIDAS Journal
Published in The MIDAS Journal
A method for real-time automatic tracking of the left ventricle (LV) in 3D ultrasound is presented. A mesh model of the LV is deformed using mean value coordinates enabling large variations. Kalman filtering and edge detection is used to track the mesh in [...]
Automatized Evaluation of the Left Ventricular Ejection Fraction from Echocardiographic Images Using Graph Cut
Published in The MIDAS Journal
Published in The MIDAS Journal
In this paper, we present a fast and interactive graph cut method for 3D segmentation of the endocardial wall of the left ventricle (LV) given 3D echocardiographic images. This is a challenging task due to the poor contrast and the low signal-to-noise ratio [...]
Clinical Expert Delineation of 3D Left Ventricular Echocardiograms for the CETUS Segmentation Challenge
Published in The MIDAS Journal
Published in The MIDAS Journal
Within the framework of the CETUS challenge, forty-five 3D echocardiographic datasets have been acquired and segmented independently by three clinical experts from different hospitals. The goal was to generate a well-established ground truth of validated [...]
Junctions of tubular structures (vasculature, trachea, neuron, etc) in medical images are critical for the topology of these structures. Identification of them is helpful in many applications. For example, quantification of geometric vascular features, [...]
The graph windowed Fourier transform: a tool to quantify the gyrification of the cerebral cortex
Published in The MIDAS Journal
Published in The MIDAS Journal
The Gyrification Index (GI) quantifies the amount of folding of a cortical surface. In this paper, we show the efficiency of spectral analysis to perform such a task, and in particular we explain how the graph windowed Fourier transform can be used as a tool [...]
This document presents a VTK wrapper of an extracted portion of ‘3DTK - The 3D Toolkit’
(http://threedtk.de) to enable a developer to find planes in 3D point cloud data.
This document describes an ITK implementation of an interactive method for tracing curvilinear structures.
The basic tools provided in this framework are an oriented flux-based tubularity measure and a geodesic path
tracer that uses the fast marching [...]
On the Importance of Location and Features for the Patch-Based Segmentation of Parotid Glands
Published in The MIDAS Journal
Published in The MIDAS Journal
The segmentation of parotid glands in CT scans of patients with head and neck cancer is an essential part of treatment planning. We introduce a new method for the automatic segmentation of parotid glands that extends existing patch-based approaches in three [...]
Model-based left ventricle segmentation in 3D ultrasound using phase image
Published in The MIDAS Journal
Published in The MIDAS Journal
In this paper, we propose a semi-automatic method for left ventricle segmentation. The proposed method utilizes a multi-scale quadrature filter method to enhance the 3D volume, followed by a model-based level set method to segment the endocardial surface of [...]
Fostering Open Science in Lung Cancer Lesion Sizing with ITK module LSTK
Published in The Insight Journal
Published in The Insight Journal
This document describes the latest efforts in integrating the Lesion Sizing Toolkit (LSTK) into ITK v4 as an external/remote module providing an Open Science dashboard website with a large open image archive of lung cancer CT images for LSTK development and [...]
We have implemented filters for computing phase symmetry (PS) in ITK using steerable filters computed and applied in the Fourier domain. In some recent publications, phase symmetry has been shown to be a useful pre-processing measure for performing image [...]
This document describes the implementation using the Insight Toolkit of an algorithm for detecting creases (ridges and valleys) in N-dimensional images, based on the Local Structure Tensor of the image. In addition to the filter used to calculate the [...]
This document describes the workflow for unwarping structural MR images, in particular T1-weighted SPGR and MP-RAGE scans, using reference scans of the Magphan(R) EMR051 Quantitative Imaging Phantom (a.k.a. ADNI Phantom) and the tools of the Computational [...]
Evaluation Framework for Algorithms Segmenting Short Axis Cardiac MRI.
Published in The MIDAS Journal
Published in The MIDAS Journal
The motivation of the segmentation challenge is to quantitatively analyze global and regional cardiac function from cine magnetic resonance (MR) images, clinical parameters such as ejection fraction (EF), left ventricle myocardium mass (MM), and stroke volume [...]
An entropy based multi-thresholding method for semi-automatic segmentation of liver tumors
Published in The MIDAS Journal
Published in The MIDAS Journal
Liver cancer is the fifth most commonly diagnosed cancer and the third most common cause of death
from cancer worldwide. A precise analysis of the lesions would help in the staging of the tumor and
in the evaluation of the possible applicable therapies. In [...]
Minimally Interactive Knowledge-based Coronary Tracking in CTA using a Minimal Cost Path
Published in The MIDAS Journal
Published in The MIDAS Journal
An algorithm for minimally interactive coronary artery tracking is presented. Tracking ability and accuracy results are demonstrated on 16 images CTA images.
First, a region of interest is automatically selected and a denoising filter applied. Then, for each [...]
