Laplacian Mesh Deformation
Deforming a 3D surface mesh while preserving its local detail is useful for editing anatomical atlases or for mesh based segmentation. This contribution introduces new classes for performing hard and soft constraints deformation in a flexible design which [...]

Parameterization of discrete surfaces
Parameterization of surfaces, sometimes alled ”‘flattening”’ as it maps a surface embedded in 3D into its intrinsic 2D domain, is a powerfull tool for the analysis of surfaces. For the past years, there has been a growing interest in the Community [...]

Poisson Surface Reconstruction for VTK
This document presents an implementation of the Poisson surface reconstruction algorithm in the VTK framework. (This code was, with permission, adapted directly from the original implementation by Kazhdan, Bolitho, and Hugues. The original implementation can [...]

Surface Mesh Discrete Curvature Estimators
Computing local curvatures of a given surface is important for applications, shape analysis, surface segmentation, meshing, and surface evolution. For a given smooth surface (with a given analytical expression which is sufficiently differentiable) curvatures [...]

Surface Mesh Normals Filter
We have previously developed a new surface mesh data structure in itk (code{itk::QuadEdgeMesh}~cite{itkQE}). In this document we describe a new filter (code{itk::QENormalFilter}) to estimate normals for a given triangular surface mesh in this data structure. [...]

Surface Meshes Smoothing
No opinion
This paper describes the implementation of a surface smoothing filter in ITK, based ont he Quad Edge Mesh surface data structure.

An Adaptive Thresholding Image Filter
An Insight Toolkit (ITK) algorithm for adaptively thresholding images is presented in this paper. Currently, the usage of thresholding methods in ITK has made use of global thresholds, confidence connected thresholds and neighborhood strategies. The current [...]

Surface Meshes Incremental Decimation Framework
When dealing with meshes, it is often preferable to work with a lower resolution mesh for computational time purpose, display. The process of reducing a given mesh, mesh decimation, is thus an important step in most of pipeline dealing with meshes. [...]

Mutable Priority Queue Container
When dealing with functional minimization, or maximization, it can sometimes be solved by a greedy algorithm. To implement greedy algorithm one needs priority queue container, i.e. get for a very low cost the lowest or highest element present in a sorted [...]

Triangular Meshes Delaunay Conforming Filter
The emph{Delaunay triangulation} is the triangulation of a set of points which maximizes the minimum angle of all angles of the triangles, and thus triangle aspect ratios. So converting a non Delaunay triangulation into a Delaunay triangulation, emph{Delaunay [...]

Microscopy Image Analysis: Blob Segmentation using Geodesic Active Contours
No opinion
An Insight Toolkit (ITK) processing framework for blob segmentation with applications to microscopy images is presented in this paper. Our algorithm is a refinement of the work of Mosaliganti et al. [3] for splitting cell clusters. The basic idea is to [...]

An Optimized N-Dimensional Hough Filter for Detecting Spherical Image Objects
An Insight Toolkit (ITK) algorithm for detection of spherical objects using Hough methods with voting is presented in this paper. Currently, the usage of Hough methods for detecting linear and circular elements exists for 2D images in ITK. The current work [...]

level set segmentation using coupled active surfaces
No opinion
An Insight Toolkit (ITK) processing framework for simultaneous segmentation of multiple objects using active contours without edges is presented in this paper. These techniques are also popularly referred to as multiphase methods. Earlier, we had an [...]

Cell Tracking using Coupled Active Surfaces for Nuclei and Membranes
No opinion
An Insight Toolkit (ITK) processing framework for segmenting and tracking nuclei in time-lapse microscopy images using coupled active contours is presented in this paper. We implement the method of Dufour et al.[2] to segment and track cells in fluorescence [...]

CTest Integration of Sikuli Automated GUI Testing
No opinion
In order to test our software GoFigure2 for the visualization and the processing of extremely large 3D+t microscopy images, we utilized the visual programming technology Sikuli to automate our GUI testing. We then integrated these Sikuli tests into CTest [...]

An implementation of the minimization of region-scalable fitting energy levelsets
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 [...]

Level Set Segmentation: Active Contours without edge
An Insight Toolkit (ITK) processing framework for segmentation using active contours without edges is presented in this paper. Our algorithm is based on the work of Chan and Vese [1] that uses level- sets to accomplish region segmentation in images with [...]

A simple Qt based comparison program for ITK and VTK images.
This document describes a project that can compare many images simultaneously in a synchronized manner. Such an application can be used in any ITK/VTK image processing pipelines; the programmer can use it to quickly visualize and compare intermediate results [...]

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