[Mristudio-users] Questions regarding Transformation in Landmark

[Seongjin]

Thanks a lot! All my questions are cleared now.
-SC

On Wed, Jun 24, 2009 at 11:11 AM, susumu mori <susumu at mri.jhu.edu> wrote:

> Hi all,
>
> I made a PPT presentation showing how you can recalculate normalized maps
> based on a normalized tensor file.
>
> Please go to, https://www.mristudio.org/wiki/user_manual/landmarker and
> see "Step one: Recalculation of DTI Maps from a Normalized Tensor File"
>
> To obtain the normalized tensor file, you can follow other "Step One"
> sections of "Getting Started".
>
> Hope this will help.
>
> Susumu
>
> On Wed, Jun 24, 2009 at 8:12 AM, [Seongjin] <choisj70 at gmail.com> wrote:
>
>> Hi HTH,
>>
>> When I tried to read normalized tensor.d file, I need to load DTI data
>> with gradient table, but these are not generated from Landmark. As far as I
>> get, all of them are updated FA, ADC, tensor file etc.
>>
>> When I start with data before normalization read and I can open the tensor
>> file. Otherwise there is no way to read tensor file. I wonder if I am doing
>> correctly. Do you know other way to read tensor file only?
>>
>> Thanks in advance.
>>
>> -SC
>>
>> On Fri, May 1, 2009 at 7:08 PM, darshan pai <darshanp20 at yahoo.com> wrote:
>>
>>> no you do not transform the vector file. you have the tensor right . You
>>> open the tensor in DTIStudio using the Open .d button, choose the tensor .
>>> It asks you for options regarding if you want to make eigen vectors FA , RA
>>> etc . Let it run, it will make all the files , just save what you need .
>>>
>>> HTH
>>>
>>> ------------------------------
>>> *From:* [Seongjin] <choisj70 at gmail.com>
>>> *To:* "DTI Studio, ROI Editor, Landmarker Questions/Support" <
>>> mristudio-users at mristudio.org>
>>> *Sent:* Friday, May 1, 2009 4:43:27 PM
>>> *Subject:* Re: [Mristudio-users] Questions regarding Transformation in
>>> Landmark
>>>
>>> Thanks for you reply.
>>>
>>> I guessed *.ani file will be the same. However, regarding *.vec file, I
>>> were warned not to transform vector file. I have no idea on this. Anyone who
>>> knows the answer?
>>>
>>> -SC
>>>
>>> On Fri, May 1, 2009 at 3:18 PM, darshan pai <darshanp20 at yahoo.com>wrote:
>>>
>>>> *.ani is the updated_FA file
>>>> and *.vec is the updated eigenvector0 file.
>>>> I think the format for both is *.dat .. just different extensions to
>>>> differentiate I guess ..
>>>>
>>>> ------------------------------
>>>> *From:* [Seongjin] <choisj70 at gmail.com>
>>>> *To:* "DTI Studio, ROI Editor, Landmarker Questions/Support" <
>>>> mristudio-users at mristudio.org>
>>>> *Sent:* Friday, May 1, 2009 12:01:05 PM
>>>> *Subject:* [Mristudio-users] Questions regarding Transformation in
>>>> Landmark
>>>>
>>>> I have data sets having reduced field of view compared to template in
>>>> the Landmarker.
>>>> I simply used linear AIR for space normalization.
>>>>
>>>> Translation and non-linear AIR seems not available for data of different
>>>> dimensions from the template.
>>>>
>>>>
>>>> Q1. I wonder what other restrictions in the space normalization or
>>>> transformation by using Landmarker.
>>>>
>>>> Q2. After transformation, I would like to do fiber tracking in DTI
>>>> Studio. What steps should I go through?
>>>>       I tried to use "Fiber Tracking" in DTI Studio main menu, however
>>>> it asked to load "*.ani" file and "*.vec" file.
>>>>       Those files were not generated at all from the normalization.
>>>>       I have updated FA, eigenvalue, tensor and AlignlinearOuptut.air.
>>>>
>>>> Thanks in advance.
>>>>
>>>> -SC
>>>>
>>>>
>>>>
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>>>> Mristudio-users at mristudio.org
>>>> http://lists.mristudio.org/mailman/listinfo/mristudio-users
>>>>
>>>>
>>>
>>>
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>>
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