Hi Satra,
thanks - that's interesting. In the data I have access to, I get the
right numbers (here 672/8=84 doubles):
tag =
group: 25
element: 4137
name: 'Private_0019_1029'
vr: 'FD'
le: 8
length: 672
It would help if you and others could share some example DICOM files so
that we can find a robust way to extract the relevant information.
Many thanks,
Guillaume.
On 10/02/15 14:59, Satrajit Ghosh wrote:
> hi craig and guillaume,
>
> you might want to check the output of that field as different sequences
> may not write out that information properly.
>
> guillaume: also on our multislice data the spm_dicom_headers interprets
> that field as 520 integers instead of 65 doubles. it treats 1byte as 1
> number, when it should be 8 bytes == 1 number.
>
> cheers,
>
> satra
>
> On Tue, Feb 10, 2015 at 9:04 AM, Guillaume Flandin <[log in to unmask]
> <mailto:[log in to unmask]>> wrote:
>
> Dear Craig,
>
> I cannot comment on dcm2nii and I am not too familiar with private DICOM
> tags but, yes, this should correspond to the slice times in ms to enter
> in the 'Slice order' entry of SPM12 slice timing correction.
>
> See the help for that option:
> > You can enter the slice timing in ms for each slice individually. For
> > Siemens scanners, this can be acquired in MATLAB from the dicom
> > header as follows (use any volume after the first one):
> > hdr = spm_dicom_headers('dicom.ima');
> > slice_times = hdr{1}.Private_0019_1029
> > Note that slice ordering is assumed to be from foot to head. If it is
> > not, enter instead: TR - INTRASCAN_TIME - SLICE_TIMING_VECTOR
>
> (MosaicRefAcqTimes is private tag (0019, 1029))
>
> Best regards,
> Guillaume.
>
>
> On 09/02/15 22:51, Craig Peters wrote:
> > Using dcm2nii on Ubuntu to turn DICOM images into 4D NIFTI's,
> dcm2nii outputs a matrix for every scan sequence called
> MosaicRefAcqTimes. Is it appropriate to use these as the inputs for
> SliceOrder in the new spm_slic_timing.m script?
> >
>
> --
> Guillaume Flandin, PhD
> Wellcome Trust Centre for Neuroimaging
> University College London
> 12 Queen Square
> London WC1N 3BG
>
>
--
Guillaume Flandin, PhD
Wellcome Trust Centre for Neuroimaging
University College London
12 Queen Square
London WC1N 3BG
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