Thank you for the advice looking into the SwE toolbox now.
Yes each subject has a pre ASL image and Post ASL image
Using the paired t test for each subject I was able to generate a con file for each subject in each group
so in the treatment group there are 11 con files and in the non treatment group there are 12 con files
I then ran a two sample t-test between treatment con files and non treatment con files and got a result
However, as an example you are saying it would be incorrect to run a paired t test between sub 1 pre asl image and sub 1 post asl image?
sorry if this is a silly question as I am fairly new to statistical analysis
Regards
Justin
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