I just wanted to mention that I came across the same problem, with a
256x256x58 dataset. It's obviously not an ideal solution, but one
thing I did at least allowed probtrackX to run: I used fslroi to crop the
images as much as possible, in my case down to 148x200x45 (having already
run bedpostX, I cropped each image within the bedpost folder).
On Wed, 12 Mar 2008 13:59:24 +0000, Tim Behrens <[log in to unmask]> wrote:
>Hi -
>Sorry for the confusion - the data you have access to is
>interpolated. The scanner probably did this without you knowing
>anything about it.
>You need the data that is not interpolated. (the matrix size will be
>something like 128x128 rather than 256x240).
>
>Next time, make sure the scanner does not interpolate the data. There
>will be a button for this somewhere on the console.
>
>For the data that you have, it is unlikely that you will be able to
>get back to the original measurements.
>
>In my opinion, it is only worth considering strategies for this data
>if you have a lot of subjects - if it is just a few then it will be
>quicker and easier to throw it in the bin and get some more data
>without interpolation.
>
>T
>
>
>
>
>On 12 Mar 2008, at 13:50, James Sheehan wrote:
>
>> Disappointing indeed, but I do have access to the original data. Is
>> there
>> anything I can do?
>> -James
>>
>> On Wed, 12 Mar 2008 13:38:41 +0000, Tim Behrens
>> <[log in to unmask]> wrote:
>>
>>> I'm afraid I think you are stuffed unless you can access the original
>>> data :(
>>>
>>> Sorry
>>>
>>> T
>>>
>>> On 12 Mar 2008, at 13:11, James Sheehan wrote:
>>>
>>>> Hi Matt,
>>>>
>>>> I added this piece of the puzzle.
>>>> "I followed up by running fslinfo on all of the
>>>> files in my subjects directory. I noticed that my
>>>> nodif_brain.nii.gz is
>>>> FLOAT 32 while the nodif_brain_mask.nii.gz is INT16. Also all of
>>>> the files
>>>> produced after DTIfit are FLOAT32 (i.e. dti_FA, dti_L1, dti_L2....)
>>>> Let me know what you think. I believe that BET is producing
>>>> nodif_brain.nii.gz and the mask."
>>>>
>>>> Does this mean that nodif_brain.nii.gz is my problem or is it my
>>>> data set in
>>>> general? What would be the next step for me?
>>>>
>>
>>
>>
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