AFNI Message Board

Dear AFNI users-

We are very pleased to announce that the new AFNI Message Board framework is up! Please join us at:

https://discuss.afni.nimh.nih.gov

Existing user accounts have been migrated, so returning users can login by requesting a password reset. New users can create accounts, as well, through a standard account creation process. Please note that these setup emails might initially go to spam folders (esp. for NIH users!), so please check those locations in the beginning.

The current Message Board discussion threads have been migrated to the new framework. The current Message Board will remain visible, but read-only, for a little while.

Sincerely, AFNI HQ

History of AFNI updates  

|
February 10, 2003 01:15PM

Hello Craig:

The error degrees of freedom for the full model are calculated as follows:

dfF = 360 (# time points)
- 3*3 (3 runs, 3 baseline parameters each)
- 3*11 (3 stimuli, 11 parameters each)
- 6 (6 motion parameters)
- 3*10 (3 runs, nfirst = 10 for each run)
= 282

Note that nfirst, the first data point used in the analysis, applies to each
individual run. By default, nfirst = max of maxlags = 10. So, the first 10
data points from each run are ignored. You can get back some (or all) of these
data points by using the "-nfirst" option to override the default setting.

Also, note that there are 6 motion parameters (not 18). Since the estimated
motion parameters are entered as stim files, they are not fitted separately
for each run. To fit the motion parameters separately for each run, you
would have to enter 18 stim files (or 18 columns). That is, the 6 motion
parameters would have to be estimated (3dvolreg) separately for each run.
The motion parameter .1D files would then have to be "zero padded" in the
appropriate locations, so that each of the 18 files (or 18 columns) would be
of length 360.

Doug Ward
Subject Author Posted

df calculation in 3dDeconvolve

Craig Stark February 10, 2003 12:25PM

Re: df calculation in 3dDeconvolve

B. Douglas Ward February 10, 2003 01:15PM

Re: df calculation in 3dDeconvolve

Craig Stark February 10, 2003 01:39PM