Hi Becky,
As Cyril says in the GUI you can switch it on or off when you specify
conditions, but it's on by default.
For scripting you can pass it in as a flag in the matllabbatch structure,
e.g.:
matlabbatch{1}.spm.stats.fmri_spec.sess(1).cond(1).name = 'ConditionName'
matlabbatch{1}.spm.stats.fmri_spec.sess(1).cond(1).onset = yourOnsetVector
matlabbatch{1}.spm.stats.fmri_spec.sess(1).cond(1).pmod(1).name = 'PmodName'
matlabbatch{1}.spm.stats.fmri_spec.sess(1).cond(1).pmod(1).param =
yourPmodVector
matlabbatch{1}.spm.stats.fmri_spec.sess(1).cond(1).pmod(1).poly = 1
matlabbatch{1}.spm.stats.fmri_spec.sess(1).cond(1).orth = 0 or 1
So this way you can set orthogonalisation on and off flexibly within each
condition (onset).
However if you're passing in names, onsets and durations cell arrays as
part of a "multiple conditions" .mat file I don't know whether there's a
way to set this globally (and if you don't it will remain on). For this
reason we've switched to the above method in our scripts.
Hope that helps
cheers
Steve
On 6 October 2016 at 19:26, PERNET Cyril <[log in to unmask]> wrote:
> in the latest version this is optional ...
>
>
> --
> Dr Cyril Pernet,
> Senior Academic Fellow, Neuroimaging Sciences
> Centre for Clinical Brain Sciences (CCBS)
>
> The University of Edinburgh
> Chancellor's Building, Room GU426D
> 49 Little France Crescent
> Edinburgh EH16 4SB
> [log in to unmask]
> <http://www.sbirc.ed.ac.uk/cyril>http://www.sbirc.ed.ac.uk/cyril
> http://www.ed.ac.uk/edinburgh-imaging
>
> ------------------------------
> *From:* SPM (Statistical Parametric Mapping) <[log in to unmask]> on
> behalf of Lawson, Rebecca <[log in to unmask]>
> *Sent:* 06 October 2016 18:48:06
> *To:* [log in to unmask]
> *Subject:* [SPM] orthogonalisation parametric modulators spm12
>
>
> Hello,
>
>
>
> Quick Question. Is orthogonalisation of parametric modulators still hard
> coded in SPM12 (as in previous versions e.g.
> http://imaging.mrc-cbu.cam.ac.uk/imaging/ParametricModulations) and, if
> so, which lines of code in which functions need to be commented out to turn
> it off? I can guess (based on the CBU instructions pertaining to SPM8) but
> I just wanted to check for definite.
>
>
>
> Thanks,
>
> B.
>
> The University of Edinburgh is a charitable body, registered in
> Scotland, with registration number SC005336.
>
>
--
Stephen M. Fleming PhD
Principal Research Associate
Wellcome Trust Centre for Neuroimaging, UCL
+44 (0)20 344 84349 | metacoglab.org | @smfleming
