External Email - Use Caution
Good to know, thanks!
Am Donnerstag, 09. Juni 2022 10:22 CEST, "Douglas N. Greve"
<dgr...@mgh.harvard.edu> schrieb:
> Oh, you're using a task regressor? That will not be convolved with the
> HRF (or its derivative). The HRF/deriv only applies to paradigm files.
> If you want that in your task regressor, you will have to do it yourself.
>
> On 6/7/2022 4:08 AM, Laura Doll wrote:
> > External Email - Use Caution
> >
> > Yes, I think so. That would mean, that the additional frames correspond to
> > the weights of the derivatives, right?
> >
> > But as I mentioned in the previous mail, they do have the same dimensions
> > (in matlab, checking the beta.vol).
> > Do you have any idea, what could have gone wrong?
> > I double checked for Copy/Paste errors or stuff like that, but didn't find
> > any.
> >
> > These are the exact terminal entries from last week:
> >
> > mkanalysis-sess -fsd bold -stc siemens -surface fsaverage lh -fwhm 5
> > -notask -spmhrf 1 -TR 2 -polyfit 2 -analysis TestPupAvg.lh -per-run
> > -taskreg PupAvg 1
> > selxavg3-sess -s S05 -analysis TestPupAvg.lh
> > mkanalysis-sess -fsd bold -stc siemens -surface fsaverage lh -fwhm 5
> > -notask -spmhrf 0 -TR 2 -polyfit 2 -analysis Test0PupAvg.lh -per-run
> > -taskreg PupAvg 1
> > selxavg3-sess -s S05 -analysis Test0PupAvg.lh
> >
> > And I loaded the results in Matlab with
> > beta1 = load_nifti('./S05/bold/TestPupAvg.lh/beta.nii.gz')
> > beta0 = load_nifti('./S05/bold/Test0PupAvg.lh/beta.nii.gz')
> >
> > Which results in equal beta1 and beta0.
> >
> >
> > Best,
> > Laura
> >
> > Am Freitag, 03. Juni 2022 19:04 CEST, "Douglas N. Greve"
> > <dgr...@mgh.harvard.edu> schrieb:
> >
> >> The -spmhrf 1 and 2 should have had additional frame in the beta.nii.gz.
> >> Is that what you are looking at?
> >>
> >> On 6/3/2022 4:51 AM, Laura Doll wrote:
> >>> External Email - Use Caution
> >>>
> >>> Okay, thanks.
> >>> But how can I find out the influence of the derivatives used?
> >>> I also tried to check the beta.nii.gz files for three different versions
> >>> of the analysis (-spmhrf 0 1 and 2), assuming that the weights for the
> >>> derivatives might be saved as additional dimensions, but the dimensions
> >>> were the same for all (163842x1x1x10).
> >>>
> >>> I feel like I am missing something here, or maybe there is some mistake
> >>> in my analysis?
> >>> This is what I used:
> >>>
> >>> mkanalysis-sess -fsd bold -stc siemens -surface fsaverage lh -fwhm 5
> >>> -notask -spmhrf 0 -TR 2 -polyfit 2 -analysis Test0.lh -per-run -taskreg
> >>> PupAvg 1
> >>>
> >>> selxavg3-sess -s S05 -analysis Test0.lh
> >>>
> >>> And Test1/2 with -spmhrf 1/2, respectively.
> >>>
> >>> Thanks in Advance!
> >>>
> >>> Laura
> >>>
> >>>
> >>> Am Mittwoch, 01. Juni 2022 16:50 CEST, "Douglas N. Greve"
> >>> <dgr...@mgh.harvard.edu> schrieb:
> >>>
> >>>> It uses the default parameters:
> >>>> tau1 = 1;
> >>>> tau2 = 1;
> >>>> ttp1 = 5*tau1; % 6 %
> >>>> ttp2 = 15*tau1; % 16 %
> >>>> c = 1/6;
> >>>>
> >>>>
> >>>>
> >>>> On 6/1/2022 4:27 AM, Laura Doll wrote:
> >>>>> External Email - Use Caution
> >>>>>
> >>>>> Hi Doug,
> >>>>>
> >>>>> Thanks for your hint where to find the actual function.
> >>>>> But how can I find which values were used in my analysis? I.e. the
> >>>>> input to this function?
> >>>>>
> >>>>> Best,
> >>>>> Laura
> >>>>>
> >>>>> Am Dienstag, 31. Mai 2022 17:19 CEST, "Douglas N. Greve"
> >>>>> <dgr...@mgh.harvard.edu> schrieb:
> >>>>>
> >>>>>> Look here $FREESURFER/fsfast/toolbox/fast_spmhrf.m
> >>>>>>
> >>>>>> On 5/25/2022 9:19 AM, Laura Doll wrote:
> >>>>>>> External Email - Use Caution
> >>>>>>>
> >>>>>>> Hi everyone,
> >>>>>>>
> >>>>>>> I need some help regarding the SPM-HRF with two derivatives:
> >>>>>>> Where can I find the actual function that was used for the analysis?
> >>>>>>> I am mostly interested in the peak latency, but would also appreciate
> >>>>>>> if I can check the other parameters of the function somewhere.
> >>>>>>>
> >>>>>>> Best,
> >>>>>>> Laura
> >>>>>>>
> >>>>>>>
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