Allows the analysis and visualization of structural and functional neuroimaging data from cross-sectional or longitudinal studies. FreeSurfer proposes a suite of tools that provide extensive and automated analysis of key features in the human brain. This includes for instance skull stripping, image registration, subcortical segmentation, cortical surface reconstruction, cortical segmentation, cortical thickness estimation, longitudinal processing, fMRI analysis or tractography.
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).
Offers a reference frame for activation labeling. AAL is based on an anatomical parcellation of the Montreal Neurological Institute (MNI) single-subject brain. It makes the correspondence between the coordinates obtained from images normalized with the MNI average template as the target and the Talairach atlas brain. The tool uses the terminology for sulci to parcellate the inferior surface of the frontal lobe corresponding to the orbitofrontal cortex areas. The method aims to suppress the confusion existing in the literature regarding the relationship between a set of coordinates and its anatomical label.
Computes high-dimensional mappings to capture the statistics of brain structure and function. ANTs allows users to organize, visualize and statistically explore large biomedical image sets. It integrates imaging modalities and related information in space and time, and works across species or organ systems with minimal customization. ANTs depends on the Insight ToolKit (ITK), a widely used medical image processing library to which ANTs developers contribute. ANTs can be used paired with ANTsR, an emerging tool supporting standardized multimodality image analysis. ANTs is popularly considered a state-of-the-art medical image registration and segmentation toolkit.
Allows the user to quickly configure, test, and compare different registration methods for a specific application. elastix is a publicly available computer program for intensity-based medical image registration. The software consists of a collection of algorithms that are commonly used to solve medical image registration problems. It has a command-line interface, which simplifies batch-processing of large numbers of data sets. Registration of large 3-D images can be done efficiently, thanks to the use of stochastic subsampling techniques.
Segments structural magnetic resonance imaging (MRI) data. IBASPM aims to complement the SPM software by providing an atlas registration approach. It offers a set of features dedicated to: (i) spatial normalization; (ii) segments gray/white matter and cerebral spinal fluid tissues; (iii) labellisation; (iv) generate atlases, statistical probability anatomy maps (SPAMs) and MaxProb atlases; (v) compute statistics and individual brain volumes and (vi) visualize results. This program is compatible with SPM2 et SPM5.