Andy's Brain Book
1.0

Install

  • Overview

Unix for Neuroimagers

  • What is Unix?
  • Unix Tutorial #1: Navigating the directory tree
  • Unix Tutorial #2: Copying and Removing Files
  • Unix Tutorial #3: Reading Text Files
  • Unix Tutorial #4: Shells and Path Variables
  • Unix Tutorial #5: For-Loops
  • Unix Tutorial #6: Conditional Statements
  • Unix Tutorial #7: Scripting
  • Unix Tutorial #8: The Sed Command
  • Unix Tutorial #9: Automating The Analysis

fMRI Short Course with FSL

  • Introduction
  • fMRI Tutorial #1: Downloading the Data
  • fMRI Tutorial #2: Overview of The Flanker Task
  • fMRI Tutorial #3: Looking at the Data
  • fMRI Tutorial #4: Preprocessing
  • fMRI Tutorial #5: Statistics and Modeling
  • fMRI Tutorial #6: Scripting
  • fMRI Tutorial #7: 2nd-Level Analysis
  • fMRI Tutorial #8: 3rd-Level Analysis
  • fMRI Tutorial #9: ROI Analysis
  • fMRI Tutorial #10: Summary
  • fMRI Short Course: Appendices

FreeSurfer

  • FreeSurfer Short Course

E-Prime

  • Overview of E-Prime

AFNI

  • AFNI Overview

SPM

  • SPM Overview

Functional Connectivity with the CONN Toolbox

  • Functional Connectivity and the CONN Toolbox

Parametric Modulation

  • Parametric Modulation in SPM, FSL, and AFNI

Image Visualization with MRIcroGL

  • Image Visualization with MRIcroGL

Introduction to the Human Connectome Project (HCP)

  • Introduction to the Human Connectome Project

Finite Impulse Response (FIR) Models

  • Finite Impulse Response (FIR)

fMRI Concepts

  • Design Optimization

Diffusion Analysis with MRtrix

  • Introduction to MRtrix

ASL Analysis

  • fASL Tutorial #1: Background
  • fASL Tutorial #2: Downloading and Installing
  • fASL Tutorial #3: The N-Back Task
  • fASL Tutorial #4: The GUI
  • fASL Tutorial #5: Examining the Results
  • fASL Tutorial #6: Quantification

Frequently Asked Questions

  • Frequently Asked Questions

Statistics

  • GIMME (Group Iterative Multiple Model Estimation)

Open Science

  • Open Science

Advanced Normalization Tools (ANTs)

  • Advanced Normalization Tools (ANTs)

Tract-Based Spatial Statistics (TBSS)

  • Introduction to Tract-Based Spatial Statistics (TBSS)

Statistics for Neuroimagers

  • Statistics for Neuroimagers

Machine Learning for Neuroimagers

  • Machine Learning for Neuroimagers

Slicer

  • Slicer Overview

CAT12

  • Voxel-Based Morphometry with CAT12

Using the Supercomputer

  • Introduction to Supercomputing

Matlab for Neuroimagers

  • Matlab for Neuroimagers

ITK-Snap

  • ITK-Snap_Overview

Python for Neuroimagers

  • Python for Neuroimagers

Meta-Analysis for fMRI

  • Meta-Analysis for Neuroimagers
Andy's Brain Book
  • Search

© Copyright 2023, Andy Jahn .

Built with Sphinx using a theme provided by Read the Docs.