Thanks, Mark. I had a look at the link on that page (ie pointing to
DCM2NII by Chris Rorden). Two things put me off a little bit:
- All the warnings at the top of the site
- The fact that all the examples are all volumes already
Is there any manual on non-volume DICOM data?
The most difficult/labour-intensive step here seems to be putting all
the slice-images into volumes. I wondered if there is a tool to automate
that. Less work, but also: less error prone!
Some dicom servers (or very kind people who run/maintain those servers)
provide a script called pvconv.pl which seems to do the job better than
anything else. It is not on my CDs though...
Cheers
Alle Meije
Mark Jenkinson wrote:
> Hi,
>
> Look at the link in:
> http://www.fmrib.ox.ac.uk/fslfaq/#general_format
>
> All the best,
> Mark
>
>
>
> On 14 May 2007, at 10:31, Alle Meije Wink wrote:
>
>> Hi all,
>>
>> I have got a set of MR files on CD's which are in DICOM format. I
>> would like to convert them to NIFTI volumes.
>>
>> The problem is that instead of being stored as volumes, different
>> slices seem to be in different files (even different directories!).
>> The only way that I can view them is with the DICOM viewer on the CD's
>> and with ImageJ.
>>
>> Is it possible to convert DICOM images from that directory structure
>> to nice 3D (or 4D) NifTI files?
>>
>> If there is a command-line option (so that it is scriptable for the
>> whole CD) which leaves all the patient/scan info in (I can remove that
>> once the images are in a normal format) then that would be great.
>>
>> I reckon this has been done before (sorry for douoble-posting), lots
>> of people get their data on CD. Anybody know how to do this?
>>
>> Many thanks!
>> Alle Meije Wink
>
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