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Optimal mass transport for deformable registration and warping of 2D images
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We implement a warping method which is using the properties of elastic materials to compute the deformation between two images. The proposed elastic registration method incorporates the L2 Kantorovich-Wasserstein distance, also known as the Earth Mover’s [...]

ITK Neural Networks IO Classes
No opinion
Classes to provide IO capabilities for the ITK Neural Networks library.

Read and Write Support for MevisLab Dicom/Tiff Format
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MevisLab [2] is a development environment for medical image processing and visualization, which supports the reading and writing of combined dicom/tiff images. In this document we provide the source code (ImageIO factory) for the Insight Toolkit (ITK) [...]

itkConnectedComponentFunctorImageFilter
No opinion
itkConnectedComponentFunctorImageFilter is a generic connected components filter that operates on any N-dimensional image type with the "functor" defining what mechanism to use to join two neighboring pixels

Orthogonal Bisection of an Image
No opinion
This document describes a filter called itkOrthogonalBisectImageFilter, which bisects an input image and copies each divided region into two separate output images. Pixel values are copied while maintaining their original pixel location. The output images [...]

DicomImport
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We describe a new class itk::DicomDirectoryToImage which, given a directory consisting of raw dicom files, converts all found series to volumetric data with consistent filenaming based on the dicom headers. In addition various internal checks on the dicom [...]

Entropy Image Filter
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This paper describes an intensity image filter for computing the entropy of pixel values contained within a neighborhood centered at each input pixel. The output image contains the calculated entropy for each input pixel location. This paper is accompanied [...]

New Features for MinimumMaximumImageCalculator
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New functions are proposed for itkMinimumMaximumImageCalculator. One function allows for excluding pixels of a specified value from the computations. Another function stores all pixel indices of the maximum/minimum value. This paper is accompanied with source [...]

An Image Filter for Counting Pixel Neighbors
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This papers describes an image filter that counts the number of neighbors a pixel has storing that value at the pixel's image index. Functionality is provided to 1) adjust the neighborhood size, 2) count only those pixels within a specific value range, and 3) [...]

Variance Image Filter
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This paper describes an intensity image filter for computing the variance of pixel values contained within a neighborhood centered at each input pixel. The output image contains the calculated variance at each input pixel location. Variance calculations can [...]

Extracting Intersections of Coplanar Surfaces (Boolean-operation on touching meshes)
No opinion
The contribution to VTK presented in this article is specialized on the extraction of contact surfaces (CS). This extraction can be regarded as the intersection Boolean-operation of only touching meshes. The vtkCoplanarSurfaceExtractor filter produces either [...]

itkMultipleUnlabeledImagesToLabeledImageFilter
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This document describes a filter called itkMultipleUnlabeledImagesToLabeledImageFilter, which takes multiple images as input and generates a single image of labeled pixels. Pixels to be labeled for each image are determined by an intensity threshold. [...]

ImageLinearIterator - WithIndex removed
No opinion
ITK includes a number of iterators including the {em itkImageLinearConstIteratorWithIndex} and {em itkImageLinearIteratorWithIndex} that support visiting voxels along lines parallel to the image axes. This is particularly useful for separable filters. This [...]

Including TIFF tags in the MetaDataDictionary
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Tiff images are widely used and domain and instrument specific information is often included in some tags. There isn't any standard way of making use of this information in ITK at present. This article introduces some minor additions to the ITK tiff reader to [...]

Image mask adaptor for pixel order independent filters
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It is sometimes useful to apply a filter to a region defined by a mask. This article introduces a simple ``mask adaptor'' filter that allows this type of operation to be tested easily. It is applicable to filters that do not need any pixel location [...]

A Gradient Descent Trust Region Optimizer
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This document describes a new simple gradient descent optimizer which is a potential replacement or supplement for RegularStepGradientDescentOptimizer. The optimizer requires only the gradient of the parameters and uses a simple linear model internally. [...]

Simple directional gradients
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It is often useful to be able to compute the component of image gradient in a direction defined by a shape of some form, rather than relative to the image axis. This article introduces a simple method for doing this based on distance transforms that is [...]

Some extra image logical operations
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Logic operations such as $I > J$, where I and J are images are useful when generating masks. This submission includes $==$, $>$, $>=$, $<$ and $<=$ filters based on the existing logic filters. This is a very minor submission - there may already be easy [...]

Grayscale morphological attribute operations
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Morphological area attribute openings and closingscite{Cheng92,Vincent93a} are connected set operations that are able to remove parts of an image that meet certain criteria without changing the rest of the image. This article describes a number of classes [...]

RGB Image Color Space Transformations
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This paper describes a set of pixel accessors that transform RGB pixel values to a different color space. Accessors for the HSI, XYZ, Yuv, YUV, HSV, Lab, Luv, HSL, CMY, and CMYK color spaces are provided here. This paper is accompanied with source code for [...]

Morphology with parabolic structuring elements
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Morphological erosion and dilation filters employ a structuring function, with flat structuring functions being the most common example. This article will use the term ``parabolic'', but much of the literature uses ``quadratic'' structuring functions are less [...]

Histogram-based thresholding - some missing methods
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Using intensity histograms to estimate image thresholds is a long established practice in image processing and image analysis and a wide variety of techniques have been developed. Different techniques are appropriate for different intensity distributions. [...]

Improving performance of morphological reconstruction
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Morphological reconstruction may be implemented in a number of different ways. ITK has an iterative method and a non iterative method. This article compares the performance of another non iterative method and finds a significant improvement.

Optimization of connected component labelling
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The report details some modifications made to the ITK {em ConnectedComponentImageFilter} in an attempt to improve performance. Some interesting observations were made during this process. A new filter using a different algorithm to perform the [...]

Providing values of adjacent voxel with vtkDiscreteMarchingCubes
No opinion
The contribution to VTK presented in this article is an extension to vtk::vtkDiscreteMarchingCubes to also create vtk::vtkPointData scalars containing the value of the adjacent voxel. These can be used to remove regions of the marching-cubes 1 mesh depending [...]

Facet Analyser: ParaView plugin for automated facet detection and measurement of interplanar angles of tomographic objects
No opinion
The presented ParaView plugin allows easy access to the algorithm described in Ref 1. It enables analysis of faceted objects that exhibit distortions in their digital representation, e.g. due to tomographic reconstruction artifacts. The contributed [...]

GeoInterp: Contour Interpolation with Geodesic Snakes
Geodesic Snakes
No opinion
The process of outlining organs on three dimensional medical images is extremely time-consuming. In this document, we describe a new tool that can interpolate contours and also make them smooth. The tool uses geodesic snakes to perform these functions. The [...]

A modular architecture for biomanipulation
No opinion
The Johns Hopkins University Surgical Assistant Workstation (SAW) modular software framework provides support for robotic devices, imaging sensors and a visualization pipeline for rapid prototyping, primarily for surgical research systems. We extend the SAW [...]

The Lung Tissue Research Consortium:  An extensive open database containing histological, clinical, and radiological data to study chronic lung disease
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The Lung Tissue Research Consortium (LTRC) is an NHLBI sponsored project which is studying histological, radiological, and clinical data on patients with Chronic Obstructive Pulmonary Disease (COPD) and idiopathic pulmonary fibrosis (IPF). At completion, [...]

Computational Geometry Computation and KNN Segmentation in ITK
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This work describes the implementation of computational geometry algorithms developed within the Insight Toolkit (ITK): Distance Transform (DT), Voronoi diagrams, k Nearest Neighbor (kNN) transform, and finally a K Nearest Neighbor classifier for multichannel [...]

Real-Time Smoke and Bleeding Simulation in Virtual Surgery
No opinion
We describe the implementation of smoke and bleeding simulation in the open source surgery simulator SPRING cite{montgomery02}, which is particularly targeted for minimally invasive surgery simulation. Many smoke and bleeding simulations offer high physical [...]

Data, data everywhere, nor an image to read - Finding open image databases.
No opinion
Open Science includes access to both open source software/methodologies and open data. While there has been progress in open image databases, the results of these efforts are under-reported. As such, imaging scientists are unaware of the available data. In [...]

The cisst libraries for computer assisted intervention systems
No opinion
Computer assisted intervention (CAI) systems require the integration of an increasing number of devices, including medical monitors, sensors, tracking devices and robots. This complexity makes applications harder to develop, more difficult to debug and the [...]

Modified Expectation Maximization Method for Automatic Segmentation of MR Brain Images
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An automated method of MR Brain image segmentation is presented. A block based Expectation Maximization method is presented for the tissue classification of MR Brain images. The standard Gaussian Mixture Model is the most widely used method for MR Brain Image [...]

The watershed transform in ITK - discussion and new developments
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This report discusses various definitions and implementations of the watershed transform as well as providing an introduction to some well known techniques for applying the watershed transform to practical problems. The discussion will be focused on new and [...]

A Homogeneous Transform Class for the ITK
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Homogeneous transformations are widely used in computer vision and graphics. They commonly arise when considering the transformation of an image of a planar object under arbitrary camera motion, or the transformation of two images of the same scene due to [...]

Simultaneous Manifold Learning and Clustering: Grouping White Matter Fiber Tracts Using a Volumetric White Matter Atlas
No opinion
We propose a new clustering algorithm. This algorithm performs clustering and manifold learning simultaneously by using a graph-theoretical approach to manifold learning. We apply this algorithm in order to cluster white matter fiber tracts obtained [...]

Validation of Liver Tumor Segmentation in CT Scans by Relating Manual and Algorithmic Performance - A Preliminary Study
No opinion
The development of segmentation algorithms for liver tumors in CT scans has found growing attention in recent years. The validation of these methods, however, is often treated as a subordinate task. In this article, we review existing approaches and present [...]

Parallel algorithms for erosion and dilation of label images.
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It is sometimes useful to be able to apply binary morphological operations, such as erosions and dilations, to labelled images in a fashion that preserves the labels. This article introduces a specialised class implementing parallel methods described in beare [...]

Improving The Oriented Image Class For Use In The Registration Framework
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The original design of the ITK registration framework was based around the itk::Image class, which assumed that the pixel axes were aligned with the coordinate system axes. The itk::OrientedImage was added later as a subclass, but problems remain with its [...]

Finding regional extrema - methods and performance
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Finding regional extrema of images is an important step in a number of morphological algorithms, such as some versions of the watershed transformfootnote{This work started because we were trying to compare different watershed algorithms}. Regional extrema [...]

Consolidated morphology
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Grayscale dilation and erosion are basic transformations of mathematical morphology. Used together or with other transformations, they are very useful tools for image analysis. However, they can be very time consuming, especially with 3D images, and with [...]

Efficient implementation of kernel filtering
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Kernel based filtering is one of the fundamental tools of image analysis and processing. A number of approaches have been developed over the years that allow efficient implementation of such filters even when the kernel size is large. This article reviews [...]

Improvements to the itk::KernelTransform and Subclasses
No opinion
Kernel-based transforms such as the thin plate spline are frequently used to model deformations in medical imaging. The existing implementation in ITK is capable of being used to warp images, but does not work in the registration framework. The existing [...]

The NLM-Mayo Image Collection: Common Access to Uncommon Data
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For over two decades, the National Library of Medicine (NLM) has provided support for the collection of biomedical image data for use throughout the biomedical image, visualization and analysis community. Data collected during the Visible Human Project has [...]

A nonparametric, entropy-minimizing MRI tissue classification algorithm implementation using ITK
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This paper focuses on the role of open-source software in the development of a novel magnetic resonance image (MRI) tissue classification algorithm. Specifically, we describe the of use existing classes in the Insight Segmentation and Registration Toolkit [...]

MORPHIAS: Molecular Phenotyping Image Analysis System
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Visualizing metabolic phenotypes, tracking phenotype dynamics, and screening molecular interventions all require comprehensive, quantitative measures of micromolecular patterns across cell classes. In this project we develop an easy-to-use interface that [...]

Cumulative Gaussian Curve Fitter for Boundary Parameterization
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We have previously developed an algorithm for locating boundaries in an image with sub-pixel resolution, as well as estimating boundary width and image intensity within the adjoining objects. The algorithm operates by finding the parameters of a cumulative [...]

A DICOM-based streaming service for the Digital Operating Room
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In the Digital Operating Room there is a need to support data streaming to create advanced integrated surgical assist systems. In this paper we propose a DICOM-based streaming mechanism which leverages the interoperability definitions offered by DICOM to [...]

Adapting the ITK Registration Framework to Fit Parametric Image Models
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The image registration framework in the Insight Tookit offers a powerful body of code for finding the optimal spatial transform that registers one image with another. However, ITK currently lacks a way to fit parametric models of image pixel values to an [...]

MatVTK - 3D Visualization for Matlab
No opinion
The rapid and flexible visualization of large amounts of com- plex data has become a crucial part in medical image analysis. In re- cent years the Visualization Toolkit (VTK) has evolved as the de-facto standard for open-source medical data visualization. [...]

Modeling Tumor Cellularity in Newly Diagnosed GBMs using MR Imaging and Spectroscopy
No opinion
In this paper, we analyze the relationship between parameters of brain tumors obtained through in vivo magnetic resonance imaging (MRI), in vivo magneticnresonance spectroscopy (MRS), and ex vivo immunohistochemistry (IHC). The goal of our project is to [...]

Kinematics Based Safety Operation Mechanism for Robotic Surgery extending the JHU SAW Framework
No opinion
As robotic surgery gains popularity [1, 2, 3], methods for improving situational awareness during tele- operation have become an active area of research. Literature has attempted to incorporate haptic feedback displays to enhance and improve user performance. [...]

Document Object Model based XML Handling in ITK
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The Insight Segmentation and Registration Toolkit (ITK) previously provided a framework for parsing Extensible Markup Language (XML) documents using the Simple API for XML (SAX) framework. While this programming model is memory efficient, it places most of [...]

Grid voxelization with partial volume effects in VTK
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We present a filter that voxelizes the volume of a 3D structured, unstructured, or rectilinear grid into a vtkImageData with partial volume effects. The partial grid volume occupying each voxel is computed exactly from the intersection of the grid volume and [...]

Voxelizer plug-in for Blender
No opinion
This document describes a plug-in for Blender (www.blender.org) that allows to rasterize 3D mesh objects into 3D voxel data, i. e. it allows to voxelize Blender meshes. In 2D, this process can be compared to rasterization of vector graphics into pixel [...]

Using TubeTK to Automatically Merge Volumes
No opinion
This article describes implementation of a CLI module to merge an image into the space of another adjacent image using the Insight Toolkit. The algorithm constructs a smoothly stitched image out of two or more smaller images. The overlapping regions of the [...]

Gaussian Intensity Model with Neighborhood Cues for Fluid-Tissue Categorization of Multi-Sequence MR Brain Images
No opinion
This work presents an automatic brain MRI segmentation method which can classify brain voxels into one of three main tissue types: gray matter (GM), white matter (WM) and Cerebro-spinal Fluid (CSF). Intensity-model based classification of MR images has proven [...]

Vessel Enhancing Diffusion
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Recently, an implementation of the Vessel Enhancing Diffusion (VED) algorithm [3] using the Insight Toolkit (ITK) framework [2] has been proposed by Enquobahrie et al.[1]. In this paper we present an alternative implementation, for two reasons. First, in this [...]

Tetrahedral mesh generation for medical imaging
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We describe the open source implementation of an adaptive tetrahedral mesh generator particularly targeted for non-rigid FEM registration of MR images. While many medical imaging applications require robust mesh generation, there are few codes available. [...]

A Modification to Otsu Thresholding Method for ICV Segmentation
No opinion
A modification is made to Otsu thresholding method. It provides better results for ICV (Intracranial volume) segmentation on one kind of T2-weighted MRI data.

An accessible, hands-on tutorial system for image-guided therapy and medical robotics using a robot and open-source software
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This paper describes a new open-source tutorial for image-guided therapy (IGT) and medical robotics that is both accessible and hands-on using the LEGO Mindstorms NXT (a commercially available robotics kit) and 3D Slicer (an open-source application for [...]

MIPP: A Medical Image Processing Platform based on ITK, VTK and Eclipse RCP
No opinion
A novel platform for realizing software prototypes in the area of medical image processing, analysis and visualization is introduced: The "Medical Image Processing Platform" (MIPP). A novel feature is the combination of ITK/VTK with Java/Eclipse RCP, four [...]

New Expectation Maximization Segmentation Pipeline in Slicer 3
No opinion
Many neuroanatomy studies rely on brain tissue segmentation in Magnetic Resonance images (MRI). The Expectation-Maximization (EM) theory offers a popular framework for this task. We studied the EM algorithm developed at the Surgical Planning Laboratory (SPL) [...]

Boolean Operations on Surfaces in VTK Without External Libraries
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We have written a set of classes than enable computation of boolean operations on surface meshes using only VTK classes. In addition to being compatible with the VTK license, our contribution preserves surface mesh topology to the extent possible in boolean [...]

A software architecture for cell manipulation
No opinion
A software architecture has been developed for image-guided robot-assisted cell manipulation. The system provides tools for positioning and navigation of multiple micromanipulators under live microscope images. The main application of this system is in [...]

Automated Walks using Machine Learning for Segmentation
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This paper describes an automated algorithm for segmentation of brain structures (CSF, white matter, and gray matter) in MR images. We employ machine learning, i.e. k-Nearest Neighbors, of features derived from k-means, Canny edge detection, and Tourist [...]

Software Architecture of a System for Robotic Surgery
No opinion
At the German Heart Center Munich we have installed and evaluated a novel system for robotic surgery. Its main features are the incorporation of haptics (by means of strain gauge sensors at the instruments) and partial automation of surgical tasks. [...]

A Surgical Assistant Workstation (SAW) Application for Teleoperated Surgical Robot System
No opinion
The Surgical Assistant Workstation (SAW) modular software framework provides integrated support for robotic devices, imaging sensors, and a visualization pipeline for rapid prototyping of telesurgical research systems. Subsystems of a telesurgical system, [...]

An Open Source Framework for Surgical Simulation
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In this work a software framework for the virtual surgical simulation is presented. Our environment ESQUI (The acronym comes from the Spanish "Entorno para Simulacion QUIrurgica", i.e. Framework for Surgical Simulation) is based on an open software and [...]

ITK-based Registration of Large Images from Light Microscopy: A Biomedical Application
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Inactivation of the retinoblastoma gene in mouse embryos results in morphological changes in the placenta, which has been shown to affect fetal survivability. The construction of a 3D virtual placenta aids in accurately quantifying structural changes [...]

Knowledge-Based Segmentation of Brain MRI Scans Using the Insight Toolkit
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An Insight Toolkit (ITK) implementation of our knowledgebased segmentation algorithm applied to brain MRI scans is presented in this paper. Our algorithm is a refinement of the work of Teo, Saprio, and Wandall. The basic idea is to incorporate prior [...]

BioImage Suite: An integrated medical image analysis suite
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BioImage Suite is an integrated image analysis software suite developed at Yale. It uses a combination of C++ and Tcl in the same fashion as that pioneered by the Visualization Toolkit (VTK) and it leverages both VTK and the Insight Toolkit. It has [...]

Clustering Based Cardiac Resynchronization Therapy Prediction using Open Source Toolkit PRTools
No opinion
We propose a novel framework at MICCAI 2005 to predict pacing sites in the left ventricle (LV) of a heart. This framework can be used to assist pacemaker implantation and programming in cardiac resynchronization therapy (CRT) that is a widely adopted therapy [...]

Comparison of Salient Point Detection Methods for 3D Medical Images
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Salient points are used for various applications, such as medical image registration, tracking, stereoscopic matching. The purpose of this paper is to compare two commonly used methods to extract salient points in 3D medical images. We give an interpretation [...]

Development of open source software for computer-assisted intervention systems
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We are developing open source software for computer assisted intervention systems. Our primary experience has been with medical robots, but the concepts (and software) apply to many physical devices that interact with the real world. The real-time [...]

Impact of motion correction on the quantitative analysis of DCE-MR Images
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Dynamic magnetic resonance imaging (DCE-MRI) carried out with contrast media such as Gd-chelate complex (Gd-DTPA) allows the non-invasive assessment of microcirculatory characteristics of malignant lesions. Quantitative estimation of lesion [...]

Fast BlockMatching Registration with Entropy-based Similarity
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This paper describes the implementation of a multidimensional block-matching nonrigid registration algorithm. The main features of the algorithm are its simplicity, its free form nature, the modularity of the similarity measure, which makes it possible [...]

Fast image-based model of mitral valve closure for surgical planning
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Surgical repair of the mitral valve results in better outcomes than valve replacement, yet diseased valves are often replaced due to the technical difficulty of the repair process. A surgical planning system based on patient-specific medical images that [...]

Realistic And Efficient Brain-Skull Interaction Model For Brain Shift Computation
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In this paper we propose the usage of a very efficient contact implementation for modeling the brain-skull interaction. This contact algorithm is specially design for our Dynamic Relaxation solution method for solving soft-tissue registration problems. It [...]

Coronary Artery Centerline Tracking Using Axial Symmetries
No opinion
We present a method for tracking a coronary artery centerline given a single user supplied distal endpoint. Briefly, we first isolate the aorta and compute its surface. Next, we apply a novel two-stage Hough-like election scheme to the image volume to detect [...]

On What Manifold do Diffusion Tensors Live?
No opinion
Diffusion tensor imaging has become an important research and clinical tool, owing to its unique ability to infer microstructural properties of living tissue. Increased use has led to a demand for statistical tools to analyze diffusion tensor data and [...]

UNCHealthyBrainMRI-RegisterImagesModule
No opinion
UNCHealthBrainMRI registration test results from the RegisterImagesModule that is distributed with Slicer and via KWPublic.

Principal Curves: a Technique for Preliminary Carotid Lumen Segmentation and Stenosis Grading
No opinion
A vessel lumen centerline extraction method is presented. Its preprocessing and initialization for the application to 3D CT angiography (CTA) image volumes are also described. This approach is based upon the theory of principal curves to finding lumen axis. [...]

LV Challenge LKEB Contribution: Fully Automated Myocardial Contour Detection
No opinion
In this paper a contour detection method is described and evaluated on the evaluation data sets of the Cardiac MR Left Ventricle Segmentation Challenge as part of MICCAI 2009’s 3D Segmentation Challenge for Clinical Applications. The proposed method, using [...]

An Open-Source Hardware and Software Platform for Telesurgical Robotics Research
No opinion
We present our work to develop a telerobotics research platform that provides complete access to all levels of control via open-source custom electronics and software. The electronics employs an FPGA to enable a centralized computation and distributed I/O [...]

An implementation of the minimization of region-scalable fitting energy levelsets
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Intensity inhomogeneities often occur in medical images, especially when using magnetic resonance imaging. In these images, the standard Chan-and-Vese levelset segmentation method may not work properly, as it assumes constant intensity distributions for [...]

An Open-Source Solution for Interactive Acquisition, Processing and Transfer of Interventional Ultrasound Images
No opinion
Ultrasound has become a very important modality in image-guided therapy. At present, however, the collection, synchronization and transfer of ultrasonic images are more cumbersome than necessary. This paper presents a reusable solution to these problems. We [...]

Pseudo-CT generation from multiple MR images for small animal irradiation
No opinion
Introduction. Computed tomography (CT) is the standard imaging modality for radiation therapy treatment planning (RTTP) because of its ability to provide information on electron density. However, magnetic resonance (MR) imaging provides superior soft tissue [...]

A novel atlas-selection approach for multi-atlas based segmentation using the correlation of inter-atlas similarities
No opinion
Automated segmentation is a frequently applied task in the course of medical imaging. Furthermore, it is a substantial component of image-guided radiotherapy. Atlas based segmentation is one of the most frequently used approach for automated segmentation. [...]

Endocardial Segmentation using Structured Random Forests in 3D Echocardiography
No opinion
Segmentation of the left ventricle endocardium in 3D echocardiography is a critical step for the diagnosis of heart disease. Although recent work has shown effective endocardial edge detection, these techniques still preserve spurious anatomical edge [...]

Parallel N-Dimensional Exact Signed Euclidean Distance Transform
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The computation speed for distance transforms becomes important in a wide variety of image processing applications. Current ITK library filters do not see any benefit from a multithreading environment. We introduce a three-dimensional signed parallel [...]

A Flexible Variational Registration Framework
No opinion
In this article, we present an implementation of a flexible framework for non-parametric variational image registration, realized as part of ITK's finite difference solver hierarchy. In a variational registration setting, the transformation is found by [...]

The Surgical Assistant Workstation (SAW) in Minimally-Invasive Surgery and Microsurgery
No opinion
The Surgical Assistant Workstation (SAW) provides a modular, open-source software framework to support rapid prototyping of computer-assisted surgery systems, especially those that benefit from enhanced 3D visualization and user interaction. The framework [...]

BioImage Suite: An integrated medical image analysis suite: An update
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BioImage Suite is an NIH-supported medical image analysis software suite developed at Yale. It leverages both the Visualization Toolkit (VTK) and the Insight Toolkit (ITK) and it includes many additional algorithms for image analysis especially in the areas [...]

ReachIN: A Modular Vision Based Interface for Teleoperation
No opinion
Teleoperation is currently the dominant form of instrument control for surgical robotics. For example, the mechanical masters in the da Vinci surgical system provides a stable, precise interface for teleoperation, allowing execution of delicate tasks in [...]

The SIGN: A dynamic and extensible software framework for Image-Guided Therapy
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The software requirements for computer-aided navigation tools in image-guided therapy are becoming increasingly complex as a result of new possibilities in imaging and tracking hardware, novel application areas and regulatory restrictions. A new software [...]

3D Voxel-Based Volumetric Image Registration with Volume-View Guidance
No opinion
In this article, we will present a novel interactive image registration technique using the 3D volumetric view as guidance throughout the registration process. The registration criterion used in this technique is the homogeneity of the color distribution on [...]

Multimodal Registration of White Matter Brain Data via Optimal Mass Transport
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The elastic registration of medical scans from different acquisition sequences is becoming an important topic for many research labs that would like to continue the post-processing of medical scans acquired via the new generation of high-field-strength [...]

Component-based software for dynamic configuration and control of computer assisted intervention systems
No opinion
This paper presents the rationale for the use of a component-based architecture for computer-assisted intervention (CAI) systems, including the ability to reuse components and to easily develop distributed systems. We introduce three additional capabilities, [...]

Prototyping a Hybrid Cooperative and Tele-robotic Surgical System for Retinal Microsurgery
No opinion
This paper presents the design of a tele-robotic microsurgical platform designed for development of cooperative and tele-operative control schemes, sensor based smart instruments, user interfaces and new surgical techniques with eye surgery as the driving [...]

CITK - an architecture and examples of CUDA enabled ITK filters
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There is great interest in the use of graphics processing units (GPU)for general purpose applications because the highly parallel architectures used in GPUs offer the potential for huge performance increases. The use of GPUs in image analysis applications has [...]

Multi-Atlas-based Segmentation with Hierarchical Max-Flow
No opinion
This study investigates a method for brain tissue segmentation from 3D T1 weighted (T1w) MR images via convex relaxation with a hierarchical ordering constraint. It employs a multi-atlas-based initialization from 5 training images and is tested on 12 T1w MR [...]

Fully Automatic Segmentation of Head and Neck Organs using Active Appearance Models
No opinion
We present a fully automatic model based system for segmenting the mandible, parotid and submandibular glands, brainstem, optic nerves and the optic chiasm in CT images, which won the MICCAI 2015 Head and Neck Auto Segmentation Grand Challenge. The method is [...]

IGSTK: Development Process and Project Management Best Practices for an Open Source Software Toolkit for Image-Guided Surgery Applications
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Open source technologies are increasing in popularity for software development. Many open source projects rely on skilled development teams whose members are distributed throughout the world. Often, agile development methods are employed by these teams, as [...]

IGSTK: A State Machine Architecture for an Open Source Software Toolkit for Image-Guided Surgery Applications
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The Image-Guided Surgery Toolkit (IGSTK) is an Open Source software project being developed under NIH/NIBIB funding. The toolkit will provide a common platform for implementing image-guided surgery applications and for fostering research in the field. The [...]

IGSTK: Building High Quality Roads with Open Source Software
No opinion
This paper is a position statement on the benefits that an Open Source toolkit can bring to the field of image guided surgery. The particular example discussed here is the IGSTK toolkit. IGSTK is an open source software project designed for supporting the [...]


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