Print

---

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