.. _AFNI_Overview:

=============
AFNI Overview
=============

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What is AFNI?
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AFNI (Analysis of Functional NeuroImages) is a suite of programs designed to analyze fMRI data. Created in the mid-1990's by `Bob Cox <https://www.sciencedirect.com/science/article/pii/S0010480996900142>`__, AFNI is now used by hundreds of imaging labs around the world.

.. figure:: AFNI_logo.jpeg

The following tutorials will show you how to analyze a sample dataset with AFNI. You will begin by learning the fundamentals of fMRI preprocessing, and then proceed to create a model of your data with AFNI's 3dDeconvolve command. We will finish by learning about different types of group analyses, and how to do region of interest (ROI) analyses.

.. toctree::
   :maxdepth: 1
   :caption: Start to Finish Analysis with AFNI

   AFNI_Short_Course/AFNI_fMRI_Intro
   AFNI_Short_Course/AFNI_01_DataDownload
   AFNI_Short_Course/AFNI_02_ExperimentalDesign
   AFNI_Short_Course/AFNI_03_LookingAtTheData
   AFNI_Short_Course/AFNI_04_Preprocessing
   AFNI_Short_Course/AFNI_05_1stLevelAnalysis
   AFNI_Short_Course/AFNI_06_Scripting
   AFNI_Short_Course/AFNI_07_GroupAnalysis
   AFNI_Short_Course/AFNI_08_ROIAnalysis
   AFNI_Short_Course/AFNI_09_SurfaceAnalysis
   AFNI_Short_Course/AFNI_10_Summary
   AFNI_Short_Course/AppendixA_ParametricModulation