Allows users to estimate the forward and reverse transformation between two images. SICLE is an image registration algorithm that determines the forward and reverse transformation between them while minimizing the inverse consistency error. It acts like that to cut the correspondence between these transformations associated with large inverse consistency errors. The estimated transformations are regularized thanks to a thin-plate spline (TPS) model.
Conducts surface registration from multiple sources of information. MSM represents displacement of each surface vertex in form of a discrete set of possible rotations. It offers a regularization term method specially created for the spherical surface. This tool is based on penalising the geodesic distance between rotation matrices. It has a reduced sensitivity to local minima and includes a multivariate mutual-information measure.
Serves for interactive and deformable alignment of large 2D and 3D images. BigWarp enables landmark pair placement and displays the effects of the warp on-the-fly. It builds upon BigDataViewer for visualization and data sources which enables navigation of large images with arbitrary 3D reslicing and zoom. Moreover, it uses a Thin Plate Spline implemented in Java to build a deformation from point correspondences.
Provides a protocol that enables a thorough, optimization-independent, and systematic statistical evaluation of important similarity measure properties. Evaluation of similarity measures includes Accuracy (ACC), Distinctiveness of the Optimum (DO), Capture Range (CR), Number of Local Minima (NOM), Risk of Non-convergence (RON). The evaluation consists of three steps: (i) sampling of the parametrical space, (ii) computation of similarity measure values and (iii) computation of similarity measure properties.
Constructs deformable brain images. HAMMER can reveal geometric characteristics of the underlying anatomical structures. It employs a hierarchical deformation mechanism and an attribute vector to work. This tool can reflect the geometric properties of the underlying structure from a local scale, to a global scale that reflected spatial relationships with more distant surface points.
Automates regional behavioral analysis of human brain images. Mango provides analysis tools and a user interface to navigate image volumes. The tool is ease to use, multi-platform Java application and extensive region of interest tools. It has the ability to add and update software as a plugin module and offers full access to a suite of image viewing and processing features. The software is able to rapidly determine regionally specific behaviors for researchers’ brain studies.
Permits to visualize electrodes implantation on image data and prepares database for group studies. IntrAnat Electrodes allows users to search across patients according to a variety of anatomical and functional criteria. It uses established research neuroimaging toolboxes such as BrainVisa, Freesurfer, SPM and ANTs to recycle optimal and validated image analysis processes.
Rebuilds 3D models of lesioned arteries and enabled quantitative assessment of stenoses. 3D reconstruction algorithm builds a 3D computational patient-specific model of lesioned vessel, directly from 2D projections acquired while computing invasive coronary X-ray angiography, and is relevant for immediate geometric and quantitative analysis. The 3D model result is appropriate for isogeometric analysis (IGA) of blood flow in the coronary arteries.
Allows users to quickly configure, test, monitor, and compare different registration methods for a specific application. FZUImageReg is a user-friendly dose fusion system based on hybrid image registration for radiation dose assessment in cervical cancer radiotherapy. The main part of the software consists of a collection of medical image registration algorithms and a modular design with a user-friendly interface.
Displays and analyzes multimodality volumetric medical images. AMIDE provides the research community with a relatively full-featured, freely available, and open source solution for single and multimodality volumetric medical image analysis. It provides a variety of additional features useful to the molecular imaging researcher, including fully three dimensional ROI drawing and analysis for static and dynamic images, two and three way linked viewing (dual cursor mode), rigid body registration using fiducial markers, filtering and cropping of data sets, movie generation, series viewing, and volume rendering.
Allows to perform registration and segmentation for image analysis. Segmentation is the process of identifying and classifying data found in a digitally sampled representation. ITK uses a model of software development known as Extreme Programming. The sampled representation is an image acquired from such medical instrumentation as Computed Tomography (CT), Magnetic Resonance Imaging (MRI) or ultrasound scanners. Registration is the task of aligning or developing correspondences between data. For example, in the medical environment, a CT scan may be aligned with a MRI scan in order to combine the information contained in both.
Allows detailed investigation and evaluation of multidimensional biomedical images. AnalyzePro can serve for magnetic resonance imaging, radionuclide emission tomography, ultrasound tomography, and 3-D imaging modalities based on x-ray computed tomography. It contains features for interactive display, manipulation and measurement of multidimensional image data.
Allows to realize analysis and visualisation of 3D biological image data, and more particularly traced neurons. NAT accepts 3D images in NRRD and 'Amira' AmiraMesh formats. The data can be manipulated and visualized in 3D. The manipulation includes applying calculated registrations, e.g. using the 'CMTK' registration suite. This tool permits morphological comparison between neurons including clustering and searching.
Performs 2D image registration based on elastic deformations represented by B-splines. bUnwarpJ is an ImageJ plugin that works on registration of two images, A and B: Image A is elastically deformed to look as similar as possible to image B, and, at the same time, the "inverse" transformation (from B to A) is also calculated. As a result, two images are given: the deformed versions of A and B images.
Allows users to perform 2D and 3D non-rigid image registration. MIRT is a standalone software which includes six main features for completing: (i) similarity measures such as residual complexity (RC) or Correlation Coefficient (CC), (ii) transformation models both parametric and non-parametric, (iii) optimization, (iv) regularization, (v) a hierarchical registration and (vi) groupwise registration.
Offers a digital imaging and communications in medicine (DICOM) solution. OsiriX is an image processing software that provides displaying, reviewing, interpreting and post-processing image files. It supports DICOM standard for a complete integration in a workflow environment and in a picture archiving and communication system (PACS).
Performs image segmentation and registration. CMP-BIA is dedicated to ImageJ/Fiji and contains a plugin named jSLIC. This plugin is a segmentation method for clustering, in a given image, similar regions (as known as superpixels) which are usually used for other segmentation techniques, classification and registration. It gives reliable superpixels shapes, with no need of decreasing their size.
Provides a common visualization and storage platform, which can be used for visualization of data from any source, provided that an import filter exists for this format. This platform can be extended by various software packages, individually designed for analysis of specific data sets. Visualization is based on multi-planar reconstruction allowing extraction of arbitrary slices from a 3D-volume.
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