Beauchamp:Lab Notebook



General Important Notes

 * 1) How To Install Software and set up new computers
 * 2) How To order things for the lab
 * 3) Information for Subjects and Experimenters, such as Human Subjects Training

MRI: Cortical Surface Models

 * 1) Preparation for Creating Cortical Surface Models
 * 2) Creating Cortical Surface Models
 * 3) Using Cortical Surface Models
 * 4) What If a Cortical Surface Model Exists Already
 * 5) What If Cortical Surface Model Looks Bad
 * 6) Creating Standardized Surface Models
 * 7) FreeSurfer Standard Surface Models
 * 8) Finding Distances on the Surface
 * 9) Finding Closest node on the Surface
 * 10) SUMA
 * 11) Free Surfer
 * 12) Caret

MRI: fMRI Experimental Design and Analysis

 * 1) Creating Random Stimulus Orderings For Rapid Event-Related Designs
 * 2) Overview of fMRI Analysis
 * 3) Motion and Distortion Correction
 * 4) Creating AFNI BRIKs from MR Data
 * 5) Creating Volume Average Datasets with AFNI
 * 6) MVPA Notes
 * 7) RealTimefMRI
 * 8) Group Analysis with Unequal Group Sizes using GroupAna.m
 * 9) HiResolution fMRI
 * 10) ROI Analysis

MRI: DTI Analysis

 * 1) Processing Diffusion Tensor Imaging Data
 * 2) Automatic VOI Initialization for Interactive Tractography
 * 3) Deterministic Tractography Constrained by Image Masks

TMS/TMS+MRI

 * 1) Overview of an MRI/fMRI guided TMS Experiment
 * 2) Notes on TMS

NIRS

 * 1) Eswen Fava's NIRS Manual

Electrophysiology/Electrophysiology+MRI

 * 1) Electrode Localization and Naming
 * 2) Electrophysiology Protocols
 * 3) Analyzing ECoG data (by Adam Burch)
 * 4) Making Resting State Correlation Maps

Psychophysics

 * 1) New Auditory Tactile Experiment
 * 2) d' (d-prime) Analysis
 * 3) Race Model Analysis

Misc. Experiment Notes

 * 1) McGurk Stimuli
 * 2) Autism Data
 * 3) Scanner Stimulus and Eye Tracker Setup
 * 4) Retinotopic Mapping
 * 5) AFNI Atlas Values
 * 6) Tactile Experiment Notes
 * 7) Notes on analyzing MRI data (old)
 * 8) ANOVAs in MATLAB