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Two Point Minimum Cost Path Approach for CTA Coronary Centerline Extraction
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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 [...]

Fast Marching Minimal Path Extraction in ITK
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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)
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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
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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
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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
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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 [...]

Automatic Junction Detection for Tubular Structures
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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
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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 [...]

Tubular Geodesics using Oriented Flux: An ITK Implementation
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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
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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
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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
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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 [...]

Structural MRI Unwarping Using CMTK
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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 [...]

An entropy based multi-thresholding method for semi-automatic segmentation of liver tumors
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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
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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 [...]


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