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.
Amira 3D visualization and analysis software
Analysis of Functional NeuroImages (AFNI)
Analyze developed by the Biomedical Imaging Resource (BIR) at Mayo Clinic.
Brain Image Analysis Package
BrainSuite, a collection of tools for extraction of cerebral cortex, segmentation and labeling brain volumes and surfaces, and distortion correction and coregistration of diffusion data with structural MRIs.
CamBA
Caret Van Essen Lab, Washington University in St. Louis
CONN (functional connectivity toolbox)
EEGLAB
ExploreDTI is a graphical toolbox, for exploratory diffusion (tensor) MRI and fiber tractography.
FMRIB Software Library (FSL)
FreeSurfer
ISAS (Ictal-Interictal SPECT Analysis by SPM)
LONI Pipeline, Laboratory of Neuro Imaging, USC
Mango, developed at the Research Imaging Center, University of Texas Health Science Center at San Antonio
Neurophysiological Biomarker Toolbox
nilearn, Machine learning for Neuro-Imaging in Python
NITRC The Neuroimaging Informatics Tools and Resources Clearinghouse. An NIH funded database of neuroimaging tools
nordicICE
Olea Medical: Olea Sphere 3.0, a CE - marked and FDA cleared product to automatize image processing for Neuroimaging and others fields and pathologies.
Signed differential mapping (SDM)
The Spinal Cord Toolbox (SCT) is the first comprehensive and open-source software for processing MR images of the spinal cord.
Statistical parametric mapping (SPM)
Tortoise Tolerably Obsessive Registration and Tensor Optimization Indolent Software Ensemble. A software package is for processing diffusion MRI data
