Misc Items

3dDeconvolve Changes - Spring 2007

Several Small Things, and One Big Thing

Notes on Parallelizing AFNI Programs (3dDeconvolve On FreeBSD)

Notes on increasing the shared memory limit on FreeBSD 5.x by Jason Bacon <jbacon@mcw.edu>

Mapping Data to the Talairach Atlas

A sample script on how to map some numbers to brain regions, using the Talairach-Tournoux Atlas database. For example, put the value 0.379 in each hippocampus voxel, and the value 0.666 in each superior temporal gyrus voxel.

FMRI Analysis - NIH Presentation - 31 Mar 2004

PowerPoint presentation given by RW Cox on 31 Mar 2004, outlining FMRI data analysis methods in a nontechnical way. You also need to download the animated GIF files that go with it.

AFNI Colorscales

AFNI Colorscales

Thoughts on Computational Toolsets for Neuroimaging

Thoughts on Computational Toolsets for Neuroimaging

Notes on Parallelizing AFNI Programs

Notes on Parallelizing AFNI Programs

User Written Extensions to AFNI (Plugins)

User Written Extensions to AFNI (Plugins)

How to Program Realtime AFNI

How to Program Realtime AFNI

PostScript notes on registration in FMRI

PostScript notes on registration in FMRI (somewhat old now - based on my presentation at HBM'96 in Boston).

Creating Regions of Interest (ROI) in AFNI

Creating Regions of Interest (ROI) in AFNI

3dDeconvolve Speed Test

3dDeconvolve Speed Test

The AFNI TTatlas+tlrc Dataset

The AFNI TTatlas+tlrc Dataset

3dDeconvolve -xjpeg Sample Image

8 runs X polort=1 gives 16 columns of baseline, followed by 8 columns of signal model regressors; there are 1424 time points (vertical axis)

afni_build

How to Build AFNI/SUMA on your system (may be outdated)

afni_download

AFNI/SUMA Download Techniques

SUMA Installation

SUMA Installation

SUMA Usage

SUMA Usage

MTest

A Java page for scrolling through brain slices quickly (about 1 MB).

MTest2

Another Java sample, this one with a rotating rendered brain volume (about 700 KB).

AFNI Startup Manual

AFNI Startup Manual

NIML Documentation

Documentation of the NIML format and C API (such as it is).

Basis Function Suggestions

Suggested Choices for Basis Functions for use with -stim_times in 3Ddeconvolve