[Mristudio-users] how to apply brain mask for Tensor calculation.

[Kotikalapudi Raviteja]

Hi,

I really appreciate your help. I am able to solve the gradient table issue.
I have co-registered FA maps to their respective T1 images.
*FA image dimension: 128x128x70*
*T1 image dimension: 256x256x165*
*Co-registered image dimensions: 256x256x165*
*
*
*Now, I want to extract FA values for particular ROIs using automated
parcellation atlas. But for that process to take place, my image dimensions
should match the dimensions of the parcellation atlas. *
*
*
*Could you please suggest me a way to fix this problem? *
*Many thanks,*
*Ravi*
*
*
*
*



On Tue, Aug 6, 2013 at 7:06 AM, susumu mori <smoriw at gmail.com> wrote:

> Hi Ravi,
>
> are you reading DICOM files?
> If so, the cause of the crash is usually the DTI image file and the
> gradient table you specified didn't match.
> Can you read the file using the "open"  button? If you can read and see
> the images, count how many 3D volumes are loaded. I believe you can find 34
> volumes for Philips High table.
> Then load the same data using DtiMapping, specify the gradient table.
> Here, make sure you really have 34 rows in the table.
>
>
> On Mon, Aug 5, 2013 at 3:00 AM, Kotikalapudi Raviteja <
> raviteja.kotikalapudi at gmail.com> wrote:
>
>> Dear All,
>> I am writing in context TENSOR CALCULATION. This is the second project
>>  for which I am using the DTI Studio. I am using Philips High Angular 32 as
>> the gradient table.
>>
>> *1. While clicking on 'ADC-Map' ,  DTI Studio crashes showing the
>> following error:*
>> *     MRI VIEW 3D MFC application has stopped. *
>> *2. If at all it is successful, Tensor maps which are generated are
>> wrong.*
>> *
>> *
>> *I feel there is no problem with the computer memory. So do I need to
>> look into the gradient maps if those were the correct for this research?*
>>
>> Please provide help ASAP. I thank you for your time and consideration.
>>
>> Regards,
>> Ravi
>>
>>
>> On Sun, Aug 4, 2013 at 6:07 AM, susumu mori <smoriw at gmail.com> wrote:
>>
>>> Hi YM,
>>>
>>> When you do tensor calculation by DtiStudio, after clicking "tensor
>>> calculation" button, you can set a threshold value to mask out all the
>>> noise floor outside the brain.
>>>
>>>
>>> On Thu, Aug 1, 2013 at 7:26 AM, Youngmin Huh <ymin1123 at gmail.com> wrote:
>>>
>>>> Hi,
>>>> There is too much noise outside the brain, so I want to apply brain
>>>> mask to eliminate the noise.
>>>> I tried to use ROI editor to make brain mask, using skull strip. I
>>>> obtained mask.nii on scrolldown box and saved it to a dat file.
>>>> but I could not load it for tensor calculation. I found 'select a
>>>> mask-image' option, but only subjectname.dat-0, subjectname.dat-1,
>>>> ...-2, ...-3 was available.
>>>> how could I apply mask image for Tensor calculation?
>>>>
>>>> I would appreciate any comments.
>>>>
>>>>
>>>> YM Huh
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>>>
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