Harvard Medical School
BrainPrint
Our BrainPrint tools provide shape descriptors of neuroanatomical structures and require a FreeSurfer or FastSurfer segmentation as a pre-processing step. BrainPrint is based on “ShapeDNA” a spectral shape descriptor.
- Data analysis
- MRI
- open source
- + 1
- Python
FastSurfer
FastSurfer is a fast and accurate deep-learning pipeline for the analysis of human brain MRI. FastSurfer provides a fully compatible FreeSurfer alternative for volumetric and surface-based thickness analysis, also supporting sub-mm resolutions, and sub-segmentation of neuroanatomical structures.
- Data analysis
- Deep Learning
- Image processing
- + 3
- Jupyter Notebook
- Python
- Shell
- + 1
FSQC
This package provides quality assurance / quality control scripts for FastSurfer- or FreeSurfer-processed structural MRI data.
- Data analysis
- MRI
- Neuroimaging
- + 2
- Python
- Dockerfile
HIPSTA
The HIPpocampal Shape and Thickness Analysis Toolbox (HIPSTA) present a geometry-based method for the analysis of local hippocampal thickness and curvature and constructs an intrinsic coordinate system (unrolling/flattening) for statistical analysis across multiple participants.
- MRI
- Neuroimaging
- open source
- + 1
- Python
- Dockerfile
LaPy
LaPy is an open-source Python package for differential geometry on triangle and tetrahedra meshes. It includes an FEM solver to estimate the Laplace, Poisson or Heat equations, also the computations of gradients, divergence, mean-curvature flow, conformal mappings, geodesics, ShapeDNA and more.
- computational geometry
- FEM
- Laplace
- + 4
- Python