Software

This area contains software distributed by the NYU Center for Brain Imaging. Please direct all inquiries to software@cbi.nyu.edu.

NIfTI MATLAB Tools

Matlab API to handle NIfTI files. Please see the NIfTImatlab project page for more information and source code.

DICOM to NIfTI Conversion Tool

The dinifti program converts MRI images stored in DICOM format to NIfTI format. Please see the dinifti project page for more information, source code, and precompiled binaries.

RETROICOR

During BOLD fMRI, pulsation due to respiration and the heart beat can induce local displacement of brain signals through motion and distortions of the local magnetic field. Retrospective Image Correction (RETROICOR; Glover, Li & Ress 2000) is an effective and straightforward approach for reducing the influence of these signals on BOLD timeseries data.

CBI provides a MatLab implementation of the RETROICOR algorithm here.
A sample data set can be downloaded here.

data disk mount script

To mount the CBI data disk with from OS X or Linux use the mountData.sh script that can be downloaded here.

The script will install the SSHFS packages (if needed). Details of SSHFS can be found on the osxfuse site.