Table of Contents
BIAC Image Analysis software
BIAC support for other imaging software packages
Other Analysis software
Eyetracking analysis
Resting State Methods
Structural Connectome Methods
TOPUP Correction
Useful Guides
Download
BIAC Image Analysis software
Processing Pipeline
- Automated MRI data transfer and preprocessing software.
BXH/XCEDE tools
- Series of tools for describing imaging data (including
bxh_eventstats
)
fScan
- fMRI visualization and analysis.
MATLAB Tools and Guides
Working with MATLAB
- A brief overview of how to use MATLAB, including basic syntax, working with variables, and using scripts, functions, and programs.
showsrs2
- Matlab tool for viewing of fMRI data.
Tstatprofile
- Matlab function for event-related fMRI data (deprecated in favor of bxheventstats).
BIAC support for other imaging software packages
SPM
- Statistical Parametric Mapping software from the University of London
FreeSurfer
- Cortical surface reconstruction software from Harvard University
FSL
- Statistical analysis software from Oxford University
DTIPrep
- DTI QA and preprocessing software from NRRD
DTK
- Diffusion ToolKit for DTI analysis from Harvard
MEDInria
- DTI analysis from France
Other Analysis software
Eyetracking analysis
CIGAL tools
Region Based Analysis
Resting State Methods
Python/FSL Resting State Pipeline
Documentation of the BIAC resting state pipeline
Physiological Correction Methods
Documentation of some local correction methods
Structural Connectome Methods
Structural Connectome Pipeline
Documentation of basic structural connectome methodology
TOPUP Correction
EPI Correction
with polarity images using TOPUP
DWI Correction
with B0s using TOPUP
Useful Guides
provided by the Huettel Lab
Guide for new members
: Some things to get familiar with
Guides for data analysis
: ( FSL Course, Neuro Boot Camp, Eventstats, mricron, python, misc tools, thresholding )
Guides for stimulus presentation software
: ( CIGAL, PsychtoolBox, Optseq2 )
Guides for running subjects
: Information about running subjects
Matlab info
: Useful information and common issues while running matlab
Download
Downloadable Software
- distribution of BIAC tools freely available for individual use.