freesurfer/freesurfer

Neuroimaging analysis and visualization suite

What it solves

FreeSurfer addresses the challenge of analyzing and visualizing complex neuroimaging data from both cross-sectional and longitudinal studies, providing a standardized way to process human brain MRI scans.

How it works

It provides a comprehensive suite of processing streams for structural and functional MRI. This includes tools for linear and nonlinear registration, cortical and subcortical segmentation, cortical surface reconstruction, diffusion MRI, and PET analysis, as well as statistical analysis of group morphometry.

Who it’s for

It is designed for researchers and clinicians in the field of neuroimaging, including those involved in large-scale initiatives like the Human Connectome Project.

Highlights

  • Full processing streams for structural and functional MRI
  • Cortical surface reconstruction and subcortical segmentation
  • Support for linear and nonlinear registration
  • Tools for statistical analysis of group morphometry
  • Integration with diffusion MRI and PET analysis

Related

  • Project
    Deep-MI/FastSurfer

    A deep-learning neuroimaging pipeline that provides a fast alternative to FreeSurfer for brain volumetric and surface-based thickness analysis.

  • Project
    nipreps/fmriprep

    A robust preprocessing pipeline for fMRI data that automates motion correction, normalization, and brain extraction using a combination of state-of-the-art neuroimaging tools.

  • Project
    gallantlab/pycortex

    A software library for visualizing fMRI and other volumetric neuroimaging data on cortical surfaces.

  • Project
    Slicer/Slicer

    3D Slicer is a free, open-source software package for the visualization and analysis of 3D medical imaging data.

  • Project
    MRtrix3/mrtrix3

    MRtrix3 is a medical imaging software package providing tools for the processing and visualization of MRI data.