• Facilities & Resources

Description of the Center's imaging equipment and support labs

• Application Form

Apply to conduct research with the Center as a collaborator or service user

• APU

APU (Atlas-guided Photon-migration Utilities) provides utilities for using a structural MRI (from an atlas or any other MRI) to guide the analysis of Near Infra-Red Spectroscopy (NIRS) data. These tools are used in conjunction with Freesurfer and MNE. Detailed information about APU can be found here.

• Array Sensitivity Metric Software

This reconstruction program runs on the Siemens scanner generating Dicom images of the array SNR computed with the Optimum method (uses noise correlation matix) and Sum of Squares (SoS).  It also generates the noise correlation matrix and G-factors maps.  It uses the method of Peter Kellman for generating SNR in absolute units. E-mail Jonathan Polimeni for download information.

• Freesurfer & FS-Fast

The Freesurfer package is tools for segmentation, surface reconstruction and processing of surface models of the human cerebral cortex. It includes FS-Fast fMRI data analysis tools. (Freesurfer Wiki)

• HF-1

An Open-Source Hardware and Software Platform for Simultaneous Electrophysiology and MRI

• HomER

HomER (Hemodynamic Evoked Response) graphical interface for visualization and analysis of Near Infra-Red Spectroscopy (NIRS) data

• MNE

Software for anatomically and functionally constrained MEG/EEG source modeling

• OPTseq2

optseq2 is a tool for automatically scheduling events for rapid-presentation event-related (RPER) fMRI experiments (the schedule is the order and timing of events)

• PMI Toolbox

Photon Migration Imaging (PMI) Toolbox for solving diffuse optical imaging (DOI) forward and inverse problems

• fMRI Visiting Fellowship Course

A five-day intensive introduction to functional magnetic resonance imaging of the brain

• NIRS-DOT Course

A two-day intensive hands on introduction to Near Infrared Spectroscopy and Diffuse Optical Tomography

• Multimodal Imaging

A three-day hands on introduction to multimodal brain imaging using MR, EEG, MEG and optical techniques

• Short Course in fMRI Statistics

Statistics for fMRI experimentation

• MEG Data Acquisition and Analysis

Basic and Advanced training courses for collaborators and service users of the Center's MEG system

• FreeSurfer/FSL course

A five-day intensive hands-on introduction to the use of FreeSurfer and FSL for analyzing neuroimaging data

• Freesurfer Data Processing Software Tutorials

Freesurfer MRI data processing software documentation and instruction

• MEG data acquisition and analysis

MNE software includes a sample data set with a detailed tutorial in the manual

• DOT Animated Tutorial

Learn more about how Diffuse Optical Tomography (DOT) is used for functional brain imaging

• Center for Functional Neuroimaging Technologies
• Freesurfer (CFNT Subproject)
• Optseq - fMRI Event Scheduler (CFNT Subproject)
• MNE - Minimum Norm Current Estimates (CFNT Subproject)

• Athinoula A. Martinos Center for Biomedical Imaging
• Martinos Center Photon Migration Imaging Laboratory
• Martinos Center MEG Core Website