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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 [...]
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 [...]
This filter will allow support for file reading and writting in ITK for the Bio-Rad file format.
Visualization of 4D-PET/CT, Target Volumes and Dose Distribution: Applications in Radiotherapy Planning
Published in The MIDAS Journal
Published in The MIDAS Journal
In radiation treatment (RT) planning medical doctors need to consider a variety of information sources for anatomical and functional target volume delineation. The validation and inspection of the defined target volumes and the resulting RT plan is a complex [...]
By default ITK images use a contiguous memory model. This means pixel elements are stored in a single 1-D array, where each element is adjacent in memory to the previous element. However in some situations it is not desirable to use this memory model. This [...]
Small Computings for Clinicals and SCCToolKit, OR friendly Trial Package and Software Development Kit
Published in The MIDAS Journal
Published in The MIDAS Journal
This paper is about a design policy for operation-room (OR) friendly research system, software and a software toolkit SCCToolKit for this purpose, and a few examples. Examples are image processor for endoscope, OR event detector, vision based registration of [...]
A Lightweight and Portable Communication Framework for Multimodal Image-Guided Therapy
Published in The MIDAS Journal
Published in The MIDAS Journal
In today’s medicine a lot of research revolves around the combination of different imaging and tracking modalities to form a new system for Image-Guided Therapy. Such systems can help to overcome shortcomings of the individual techniques or create new kinds [...]
Enabling ITK-based processing and 3D Slicer MRML scene management in ParaView
Published in The VTK Journal
Published in The VTK Journal
This paper documents on-going work to facilitate ITK-based processing and 3D Slicer scene management in ParaView. We believe this will broaden the use of ParaView for high performance computing and visualization in the medical imaging research community. The [...]
This paper tests MPI in the Insight Journal testing environment.
A Streaming IO Base Class and Support for Streaming the MRC and VTK File Format
Published in The Insight Journal
Published in The Insight Journal
This paper describes our contribution of three new classes to the Insight Toolkit community. We present a new ImageIO base class for streaming image file, along with two derived ImageIO classes for the VTK and the MRC file formats.
This document describes an addition to the Image IO Library of the Insight Toolkit (ITK). ITK has
been able to read in Analyze image files but not the Analyze Object Maps that correspond to the images.
Analyze Object maps define regions of interest that are [...]
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 [...]
Steps towards the Integration of Model Guided Therapy Systems into the Healthcare Environment
Published in The MIDAS Journal
Published in The MIDAS Journal
Hospital Information Systems (HIS) are the primary source of information in clinical routine. In most clinics and medical centers, an electronic health record (EHR) stores relevant patient information which is passed between sub-systems using the ISO standard [...]
This paper presents parsing software for importing contours from DICOM RT structure set files into binary image files. This is a common requirement for transferring expert manual segmentations from radiotherapy treatment planning software into external image [...]
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 [...]
This paper presents code for reading contours from DICOM RT structure set files into binary labels. This is a common requirement for transferring expert manual segmentations from radiotherapy treatment planning software into external image analysis [...]
MR Parameter Map Suite: ITK Classes for Calculating Magnetic Resonance T2 and T1 Parameter Maps
Published in The Insight Journal
Published in The Insight Journal
This document describes a suite of new multi-threaded classes for calculating magnetic resonance (MR) T2 and T1 parameter maps implemented using the Insight Toolkit ITK (www.itk.org). Similar to MR diffusion tensor imaging (DTI), MR T2 and T1 parameter maps [...]
This document describes an implementation of David S. Tuch's numerical Q-Ball reconstruction algorithm implemented using the Insight Toolkit ITK (www.itk.org). The document is accompanied with the source code, input data, parameters and output data that were [...]
This document describes a new remote module implemented for the Insight Toolkit (ITK), itkBoneMorphometry. This module contains bone analysis filters that compute features from N-dimensional images that represent the internal architecture of bone. The [...]
In previous work, we presented an algorithm to synthesize volumetric images of vascular trees and generate the corresponding ground truth segmentations, bifurcation locations, branch properties, and tree hierarchy. In this work, we provide the software needed [...]
We have recently detailed the procedure for building ITK on the iOS. In this work, we contribute itkiOSImageIO , the necessary ITK class that provides the input/output (IO) interface with the repository of images stored on iOS Apple devices, such as the iPod [...]
This document describes a new remote module implemented for the Insight Toolkit ITK, itkTextureFeatures. This module contains two texture analysis filters that are used to compute feature maps of N-Dimensional images using two well-known texture analysis [...]
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 [...]
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 [...]
