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.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

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