This analysis method is effective but antiquated.

For an example of the current processing style, consider reviewing the handout for the "Soup to Nuts" bootcamp class:
AFNI class: Start to Finish



HowTo 01 : ARzs


background : background: the experiment - overview of the experiment, data and analysis
background: running the script - suggestions for learning from the script

the script : @ARzs_analyze - the Unix shell script
webified script - the Unix shell script with web links to explanations

main help pages : AFNI_howto - explanation of the shell script from an AFNI perspective
Unix help - explanation of the shell script from a Unix perspective

download : ht01_html.tgz - download script and html pages
ht01_full.tgz - download everything (includes data : 42 Megabytes)