USING READ FMRI
- Checking for motion
Motion criteria
Checking for ghosting
BATCH JOB FILES
- What is a batch job?
How to edit a batch job
Motion Correction portion of a batch job
T-map generation of a batch job
Running a batch job
Checking output files
CHECKING MOTION CORRECTION RESULTS
- Checking realign output parameters
Motion Criteria from realign output parameters
Checking top and bottom slices for out of volume motion
TRANSFORMING SINGLE SUBJECT IMAGES INTO TALAIRACH SPACE
- Using tal_define to determine in-plane parameters
Using zScale6 to determine through-plane parameters
Check individual subject transformation
CREATING GROUP COMPOSITE CONTRASTS
VIEWING OUTPUT T-MAPS IN MATLAB
- Usage for viewing t-maps for individual subjects
Usage for viewing t-maps for a list of subjects
Usage for viewing t-maps from composite contrasts
Setting the maximum and minimum in a ViewRes image
Setting images so they appear in their appropriate dimensions
Viewing individual subjects in 3D Talairach space
Getting Talairach Coordinates from ViewRes images
Creating TIFF files from ViewRes images
Printing t-maps
RUNNING STATISTICAL ANALYSES
- The "single subject" approach: Tracing regions of interest
on individual subjects
The "group composite" approach: Tracing regions of interest
on composite anatomicals
The "group composite" approach: defining regions of interest
using Talairach boxes
DoRegions program
Advice for ROI analysis
USING OPTICAL DISKS AND BURNING CDRS
EXAMPLE PROGRAMS (can be found in /boreas1/fmri_data/templates/)
- Setup file for the RUN_export_all format
Setup file for the APD2 format
Setup file for the PRISM format
Setup file for the LX format
Batch file for the RUN_export all format
Batch file for the APD2 format
Batch file for the PRISM format
Batch file for the LX format
Talairach file
Contrast file
DoRegions program - "single subject" approach: Tracing
regions on individual subjects
DoRegions program - "group composite" approach: Tracing
regions on composite anatomicals
DoRegions program - "group composite" approach: defining
regions using Talairach boxes
DoRegions output ASCII file