Hi,
Is slice timing correction recommended even for such short TR?
Best,
Jorge
On 11/04/2019 13:49, PERNET Cyril wrote:
>
> correct(ish) refslice to specify in time as well
>
>
> --
> Dr Cyril Pernet,
> Senior Academic Fellow
> Neuroimaging Sciences
>
> Centre for Clinical Brain Sciences
> Chancellor's Building, Room GU426D
> The University of Edinburgh
> 49 Little France Crescent
> Edinburgh BioQuarter EH16 4SB
>
> [log in to unmask]
> tel: +44 (0)131 465 9530
> http://www.sbirc.ed.ac.uk/cyril
> http://www.ed.ac.uk/edinburgh-imaging
> <http://www.ed.ac.uk/edinburgh-imaging >
>
>
>
> ------------------------------------------------------------------------
> *From:* SPM (Statistical Parametric Mapping) <[log in to unmask]> on
> behalf of Frank VAN OVERWALLE <[log in to unmask]>
> *Sent:* 11 April 2019 11:26
> *To:* [log in to unmask]
> *Subject:* [SPM] Slice timing for Siemens Prisma multi-band
>
> I use Siemens Prisma multi-band for the first time, and I have the
> following specifications from my EP2_Bold protocol file:
>
> TR 1000 ms
>
> Accel. factor slice 4
>
> Slice group 1
>
> Slices 56
>
> Dist. factor 0 %
>
> Position Isocenter
>
> Orientation Transversal
>
> Phase enc. dir. A >> P
>
> FoV read 210 mm
>
> FoV phase 100.0 %
>
> Slice thickness 2.5 mm
>
> TR 1000 ms
>
> Multi-slice mode Interleaved
>
> Series Interleaved
>
> Concatenations 1
>
> I also obtained the following information for slice timing from my
> DICOM file:
>
> hdr =
> spm_dicom_headers('GIFMU_STU19_005_PILOT1_.MR.VUB_PSYCHOLOGIE_SOCIALE_NEURO.0008.2769.2019.03.25.19.59.03.528731.171567102.ima')
>
> slice_times = hdr{1}.Private_0019_1029
>
> gives as answer:
>
> 700.0000 0 490.0000 70.0000 560.0000 140.0000 630.0000 280.0000
> 770.0000 350.0000 840.0000 420.0000 910.0000 210.0000 700.0000 0
> 490.0000 70.0000 560.0000 140.0000 630.0000 280.0000 770.0000 350.0000
> 840.0000 420.0000 910.0000 210.0000 700.0000 0 490.0000 70.0000
> 560.0000 140.0000 630.0000 280.0000 770.0000 350.0000 840.0000
> 420.0000 910.0000 210.0000 700.0000 0 490.0000 70.0000 560.0000
> 140.0000 630.0000 280.0000 770.0000 350.0000 840.0000 420.0000
> 910.0000 210.0000
>
> Are these the correct parameters for the slice timing batch?
>
> matlabbatch{1,1}.spm.temporal.st.scans =
> {cellstr(construct_list(fullDir, subjFiles, '', 1))};
>
> matlabbatch{1,1}.spm.temporal.st.nslices = 56;
>
> matlabbatch{1,1}.spm.temporal.st.tr = 1;
>
> matlabbatch{1,1}.spm.temporal.st.ta = 1-(1/56); % = TR -(TR/nslices);
>
> matlabbatch{1,1}.spm.temporal.st.so = [700.0000 0 490.0000 70.0000
> 560.0000 140.0000 630.0000 280.0000 770.0000 350.0000 840.0000
> 420.0000 910.0000 210.0000 700.0000 0 490.0000 70.0000 560.0000
> 140.0000 630.0000 280.0000 770.0000 350.0000 840.0000 420.0000
> 910.0000 210.0000 700.0000 0 490.0000 70.0000 560.0000 140.0000
> 630.0000 280.0000 770.0000 350.0000 840.0000 420.0000 910.0000
> 210.0000 700.0000 0 490.0000 70.0000 560.0000 140.0000 630.0000
> 280.0000 770.0000 350.0000 840.0000 420.0000 910.0000 210.0000];
>
> matlabbatch{1,1}.spm.temporal.st.refslice = 28;
>
> matlabbatch{1,1}.spm.temporal.st.prefix = 'a';
>
> The University of Edinburgh is a charitable body, registered in
> Scotland, with registration number SC005336.
--
Jorge Jovicich, Ph.D.
MR Lab Head
Center for Mind/Brain Sciences
University of Trento,
Via delle Regole, 101
38100 Mattarello (TN)
Italy
Telephone: +39-0461-28 3064
Fax: +39-0461-28-3066
Email: [log in to unmask]
MRI Methods Group: http://r.unitn.it/en/cimec/mri
CIMEC: http://www.cimec.unitn.it/
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