Doug,
Could you please let me know what this line is doing?
"fmnrep = repmat(fmn,[1 1 1 size(f.vol,3)]);"
When I try to assign f.vol/fmnrep to s.vol (this line s.vol =
f.vol./fmnrep;), matrices do not match in dimension.
Thanks,
S
On Thu, Feb 15, 2018 at 1:05 PM, Douglas N Greve <gr...@nmr.mgh.harvard.edu>
wrote:
> That does not get computed. You can do it in matlab with something like
>
> f = MRIread('f.nii.gz');
>
> fmn = mean(f.vol,4);
>
> fmnrep = repmat(fmn,[1 1 1 size(f.vol,3)]);;
>
> s = f;
>
> s.vol = f.vol./fmnrep;
>
> MRIwrite(s,'percentchange.nii.gz')
>
>
>
> On 02/15/2018 02:03 PM, Sarah Cole wrote:
> > Yes, that's exactly what I am looking for. Raw waveform as a percent.
> >
> > On Thu, Feb 15, 2018 at 1:00 PM, Douglas N Greve
> > <gr...@nmr.mgh.harvard.edu <mailto:gr...@nmr.mgh.harvard.edu>> wrote:
> >
> > h-offset is the intensity offset (basically the mean signal).
> h.nii.gz
> > is a complicated combination of the betas (regression
> > coefficients) that
> > is included for backwards compatibility. What do you mean by % signal
> > change? Do you want the raw waveform as a percent?
> >
> >
> > On 02/15/2018 01:52 PM, Sarah Cole wrote:
> > > Thank you, Doug.
> > >
> > > Sorry for not being clear. Could you please tell me what
> > h.nii.gz and
> > > h-offset.nii.gz are?
> > >
> > > Also, do you have any recommendation on how to get % signal
> > change on
> > > the signal intensity as oppose to % signal change on contrasts?
> > >
> > > Thank you
> > >
> > > On Thu, Feb 15, 2018 at 12:47 PM, Douglas N Greve
> > > <gr...@nmr.mgh.harvard.edu <mailto:gr...@nmr.mgh.harvard.edu>
> > <mailto:gr...@nmr.mgh.harvard.edu
> > <mailto:gr...@nmr.mgh.harvard.edu>>> wrote:
> > >
> > > It divides the contast (ces) by voxel-wise mean. I'm not sure I
> > > understand your quesstion about h and h-offset
> > >
> > >
> > > On 02/15/2018 01:04 PM, Sarah Cole wrote:
> > > > Hi,
> > > >
> > > > Could someone please let me know how to get the percent
> signal
> > > change
> > > > for raw signal intensity?
> > > >
> > > > I think the cespct.nii.gz gives me the contrast as %.
> > However, I am
> > > > not sure about dividing h.nii and h-offset.nii. What are
> they?
> > > >
> > > >
> > > > Thank you
> > > >
> > > >
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> > >
> > > --
> > > Douglas N. Greve, Ph.D.
> > > MGH-NMR Center
> > > gr...@nmr.mgh.harvard.edu <mailto:gr...@nmr.mgh.harvard.edu>
> > <mailto:gr...@nmr.mgh.harvard.edu <mailto:gr...@nmr.mgh.harvard.edu
> >>
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> > <tel:617-726-7422>>
> > >
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> > > <ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/
> flat/greve/
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> > >
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> > >
> > >
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> > --
> > Douglas N. Greve, Ph.D.
> > MGH-NMR Center
> > gr...@nmr.mgh.harvard.edu <mailto:gr...@nmr.mgh.harvard.edu>
> > Phone Number: 617-724-2358 <tel:617-724-2358>
> > Fax: 617-726-7422 <tel:617-726-7422>
> >
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> > <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting>
> > FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2
> > <https://gate.nmr.mgh.harvard.edu/filedrop2>
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> > <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html>
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> >
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>
> --
> Douglas N. Greve, Ph.D.
> MGH-NMR Center
> gr...@nmr.mgh.harvard.edu
> Phone Number: 617-724-2358
> Fax: 617-726-7422
>
> Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2
> www.nmr.mgh.harvard.edu/facility/filedrop/index.html
> Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/
>
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