I don't know how he extracted those exact numbers. If I were doing it I
would load it into matlab as I said before.
beta = MRIread('beta.mgh');
betamat = fast_vol2mat(beta);
Then betamat will be a matrix of Nbetas by Nvoxels. Decide which beta
and which voxel you want and print out the volume. (note that FS voxels
are 0-based whereas they will be 1-based in matlab)
On 5/26/17 3:18 AM, Duy Nguyen wrote:
Dear Doug
From what you instructed me is the data of its voxels on the whole
brain? Because I analyze on the whole brain.
I would like to interpret the result by know the result like beta 1's
value, beta 2's value and beta N's value from the file beta.mgh for
the formula Y = X*b so I can write out the result on my thesis report
like one guy got the beta values from the thread:
https://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg17519.html.
> "I use the command
> mri_glmfit --table lh.volume.txt --fsgd volume.gender.fsgd
> doss --C gender.diff.mtx --glmdir lh.vol.glmdir
> to finish regression analysis. and got the beta value ( beta1 =
> 1.9781e+03, beta2 = 2.0639e+03, beta3 = 110.9220, beta4 = 5.1964e-04 )
> from beta.mgh file."
The same question as I want to interpret the sig.mgh which means to
know the values.
Please sort me out this issue. I am totally confusing.
Warmest regards,
Duy Nguyen
*--v-- Peace --v--*
*Duy Nguyễn *
*Biomedical Engineering Department- IU HCMC*
*Cell: (+84)909999056*
*Email: duy.nguyen...@gmail.com <mailto:duy.nguyen...@gmail.com>*
On Mon, May 22, 2017 at 9:56 PM, Douglas N Greve
<gr...@nmr.mgh.harvard.edu <mailto:gr...@nmr.mgh.harvard.edu>> wrote:
beta = MRIread('beta.mgh');
beta.vol will have the pixel data
On 05/19/2017 11:04 PM, Duy Nguyen wrote:
> Thank you for you quick response Doug
>
> Please instruct me how I can read out the output file beta.mgh
to get
> the values from the mri_glmfit output on FreeSurfer.
> Thank you for your help and warmest regards,
>
> Duy Nguyen
>
> *--v-- Peace --v--*
> *Duy Nguyễn *
> *Biomedical Engineering Department- IU HCMC*
> *Cell: (+84)909999056*
> *Email: duy.nguyen...@gmail.com <mailto:duy.nguyen...@gmail.com>
<mailto:duy.nguyen...@gmail.com <mailto:duy.nguyen...@gmail.com>>*
>
> On Sat, May 13, 2017 at 11:41 PM, Douglas 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:
>
> run mri_glmfit --help for more info
>
>
> On 5/13/17 2:28 AM, Duy Nguyen wrote:
>> Dear FreeSurfer Experts
>>
>> One more question I would like to add is how to interpret the
>> output data after running mri_glmfit like beta.mgh, rstd.mgh on
>> Matlab.
>>
>> Thanks so much for your help
>> Regards,
>>
>>
>> *--v-- Peace --v--*
>> *Duy Nguyễn *
>> *Biomedical Engineering Department- IU HCMC*
>> *Cell: (+84)909999056*
>> *Email: duy.nguyen...@gmail.com
<mailto:duy.nguyen...@gmail.com> <mailto:duy.nguyen...@gmail.com
<mailto:duy.nguyen...@gmail.com>>*
>>
>> On Sat, May 13, 2017 at 12:00 AM, Duy Nguyen
>> <duy.nguyen...@gmail.com <mailto:duy.nguyen...@gmail.com>
<mailto:duy.nguyen...@gmail.com <mailto:duy.nguyen...@gmail.com>>>
wrote:
>>
>> Dear FreeSurfer experts
>>
>> I have come across with this issue as I don't know how
>> visualize the result after mri_glmfit done using --table
>> aparc flag instead of --y. Do I use Matlab to do it?
Please
>> give me the instructions briefly as I've just started
doing this?
>>
>> Any help is appreciated!
>> Warmest regards,
>> *--v-- Peace --v--*
>> *Duy Nguyễn *
>> *Biomedical Engineering Department- IU HCMC*
>> *Cell: (+84)909999056*
>> *Email: duy.nguyen...@gmail.com
<mailto:duy.nguyen...@gmail.com> <mailto:duy.nguyen...@gmail.com
<mailto:duy.nguyen...@gmail.com>>*
>>
>>
>>
>>
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Douglas N. Greve, Ph.D.
MGH-NMR Center
gr...@nmr.mgh.harvard.edu <mailto:gr...@nmr.mgh.harvard.edu>
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