Beauchamp:Lab Notebook

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Brain picture
Beauchamp Lab



Contents

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

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
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