From a FreeSurfer stand-point it is fine. Your data integrity is, of
course, your own business, but I would advise being very careful with it
and putting a comment if you can into the dicom file indicating what you
did. You might approach the manufacturer (or whoever is creating the
dicoms) about including all the correct info from the start.
doug
Niels Bergsland wrote:
Hi Doug,
Thanks for the response. The issue is that the fields are missing,
but we know that the scans are acquired in the axial plane. Would it
be a horrible idea to insert into 20,37 the following values since
they correspond to a 'true' axial plane: 1\0\0\0\1\0 ? You mentioned
before that Freesurfer uses 20,32 to calculate the order of the
slices. Can we insert values into 20,32 in order to allow Freesurfer
to work? (This would all be done prior to actually using Freesurfer
by using dcmodify from the DCMTK package to manually insert the
values, if this approach is feasible).
Thanks again Doug.
Regards,
Niels
On 10/3/06, Doug Greve <[EMAIL PROTECTED]> wrote:
Hi Niels,
I can't remember what the original problem was. Were the dicom fields
missing or were they just wrong? We can handle wrong ones, but missing
ones cause our 3rd party dicom reader to fail, which we can't really do
anything about.
doug
Niels Bergsland wrote:
> Hi again,
> From the last time that I asked about this, the project was
> temporarily put on hold, but now it has started up again...
>
> When looking back at the responses from last time, I realized that I
> am not sure if I made it clear what I was proposing as a solution to
> the missing fields 0020,0032 (ImagePositionPatient) and 0020,0037
> (ImageOrientationPatient).
> My original question was as follows:
>
> Is it possible to 'fake' the 20,37 field by
> inserting the values: 1\0\0\0\1\0 since we know they are acquired in
> the axial plane? We also know which way the
> slices are supposed to be sorted, is it possible to insert values into
> 20,32 in order to have freesurfer able to 'know' the proper sorting
> order?
>
> To which you said that you didn't have something to allow us to
> specify the fields ourselves. I realized that you thought I was
> asking if Freesurfer has the capability. What I actually meant though
> is if I can manually insert the values using, for example, dcmodify
> (part of the DCMTK) and then process the scans with Freesurfer.
> Hopefully this is a bit more clear!
> Thanks again,
> Niels Bergsland
>
>
--
Douglas N. Greve, Ph.D.
MGH-NMR Center
[EMAIL PROTECTED]
Phone Number: 617-724-2358
Fax: 617-726-7422
In order to help us help you, please follow the steps in:
surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
--
Douglas N. Greve, Ph.D.
MGH-NMR Center
[EMAIL PROTECTED]
Phone Number: 617-724-2358
Fax: 617-726-7422
In order to help us help you, please follow the steps in:
surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
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