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57,541 copies of the FreeSurfer software package have been registered for use as of April 2022 [5] and it is a core tool in the processing pipelines of the Human Connectome Project, [6] the UK Biobank, [7] the Adolescent Brain Cognitive Development Study, [8] and the Alzheimer's Disease Neuroimaging Initiative.
The FMRIB Software Library, abbreviated FSL, is a software library containing image analysis and statistical tools for functional, structural and diffusion MRI brain imaging data. FSL is available as both precompiled binaries and source code for Apple and PC computers. It is freely available for non-commercial use.
Neuroimaging software is used to study the structure and function of the brain. To see an NIH Blueprint for Neuroscience Research funded clearinghouse of many of these software applications, as well as hardware, etc. go to the NITRC web site. 3D Slicer Extensible, free open source multi-purpose software for visualization and analysis.
Vaa3D was created in 2007 to tackle the large-scale brain mapping project at Janelia Farm of the Howard Hughes Medical Institute.The initial goal was to quickly visualize any of the tens of thousands of large 3D laser scanning microscopy image stacks of fruit fly brains, each with a few gigabytes in volume.
Analysis of Functional NeuroImages (AFNI) is an open-source environment for processing and displaying functional MRI data—a technique for mapping human brain activity.. AFNI is an agglomeration of programs that can be used interactively or flexibly assembled for batch processing using shell script.
CONN includes a user-friendly GUI to manage all aspects of functional connectivity analyses, [1] including preprocessing of functional and anatomical volumes, [2] elimination of subject-movement and physiological noise, [3] outlier scrubbing, [4] estimation of multiple connectivity and network measures, and population-level hypothesis testing.
ITK-SNAP is an interactive software application that allows users to navigate three-dimensional medical images, manually delineate anatomical regions of interest, and perform automatic image segmentation. The software was designed with the audience of clinical and basic science researchers in mind, and emphasis has been placed on having a user ...
3D Slicer (Slicer) is a free and open source software package for image analysis [1] [2] and scientific visualization. Slicer is used in a variety of medical applications, including autism , multiple sclerosis , systemic lupus erythematosus , prostate cancer , lung cancer , breast cancer , schizophrenia , orthopedic biomechanics , COPD ...
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