[Insight-users] DiffusionTensor3DReconstructionFilter

[Karthik Krishnan]

On Thu, Feb 17, 2011 at 11:31 AM, Karthik Krishnan <
karthik.krishnan at kitware.com> wrote:

> Alba:
>
> Also take a look at the examples and tests I placed in the repository:
>
>    Examples/Filtering/DiffusionTensor3DReconstructionImageFilter.cxx
>
> Testing/Code/BasicFilters/itkDiffusionTensor3DReconstructionImageFilterTest.cxx
>
> and the NRRD IO part :
>    Testing/Code/IO/itkNrrdDiffusionTensor3DImageReadWriteTest.cxx
>    Testing/Code/IO/itkNrrdDiffusionTensor3DImageReadTest.cxx
>
> As the example mentions:
>
> // The easiest way to get started is to try out the filter on a sample
> dataset.
> //
> // Acquiring sample datasets:
> //  1. Get the DWI datasets from
> //        ftp://public.kitware.com/pub/namic/DTI/Data/dwi.nhdr
> //        ftp://public.kitware.com/pub/namic/DTI/Data/dwi.img.gz (gunzip
> this)
> //     These datasets contain a reference T1 image and 30 diffusion
> weighted
> //     images. See the nrrd header for details such as B value etc..
> //
> //  2. Run the example with the following args
> //       dwi.nhdr 80 Tensors.mhd FractionalAnisotropy.mhd
> RelativeAnisotropy.mhd 1
> //
> //  3. You should find 30 gradient images, 1 reference image, the FA and RA
> images
> //     in your working directory, which you can fire up in your favourite
> volume
> //     browser.
>


It appears that these two links are no longer valid.. They have moved to :

  http://public.kitware.com/pub/itk/Data/DTI/RawData/dwi.nhdr
  http://public.kitware.com/pub/itk/Data/DTI/RawData/dwi.img.gz

Also, the reference, gradient, reconstructed, and FA images have been placed
for your edification at :
  http://public.kitware.com/pub/itk/Data/DTI/Reconstructed/

Try this example out. Then try it on your data....

Hope this helps
--
karthik



>
> Hope this helps
> --
> karthik
>
>
> On Wed, Feb 16, 2011 at 11:57 PM, Magnotta, Vincent A <
> vincent-magnotta at uiowa.edu> wrote:
>
>>   Here is a link to a program that we write that uses the filter. We use
>> NRRD files as input to this program.
>>
>>
>> http://www.nitrc.org/plugins/scmsvn/viewcvs.php/GTRACT/Cmdline/gtractTensor.cxx?root=vmagnotta&view=markup
>>
>>  Vince
>>
>>   --
>> Associate Professor
>> Department of Radiology
>> 0453-D JCP
>> 200 Hawkins Drive
>> Iowa City, IA 52242
>> E-mail: vincent-magnotta at uiowa.edu
>> Phone: 319-356-8255 Fax: 319-353-6275
>> Website: http://www.healthcare.uiowa.edu/Radiology
>>
>>   From: alba garin <albagarin1986 at hotmail.com>
>> Date: Wed, 16 Feb 2011 08:15:47 +0000
>> To: <insight-users at itk.org>
>> Subject: [Insight-users] DiffusionTensor3DReconstructionFilter
>>
>>  Hi everyone,
>>
>>  im getting mad trying to use the DiffusionTensor3DReconstructionFilter
>> with a nrrd diffusion file. I store properly the gradients and after using
>> the filter I get a image with pixels of DiffusionTensor3D. the problem is
>> that this image has as voxels only zeros...
>> anyone can help me, please?
>>
>>  Thanks,
>> Alba
>>
>>   _____________________________________ Powered by www.kitware.com Visit
>> other Kitware open-source projects at
>> http://www.kitware.com/opensource/opensource.html Kitware offers ITK
>> Training Courses, for more information visit:
>> http://www.kitware.com/products/protraining.html Please keep messages
>> on-topic and check the ITK FAQ at: http://www.itk.org/Wiki/ITK_FAQ Follow
>> this link to subscribe/unsubscribe:
>> http://www.itk.org/mailman/listinfo/insight-users
>>
>> ------------------------------
>> Notice: This UI Health Care e-mail (including attachments) is covered by
>> the Electronic Communications Privacy Act, 18 U.S.C. 2510-2521, is
>> confidential and may be legally privileged.  If you are not the intended
>> recipient, you are hereby notified that any retention, dissemination,
>> distribution, or copying of this communication is strictly prohibited.
>> Please reply to the sender that you have received the message in error, then
>> delete it.  Thank you.
>> ------------------------------
>>
>> _____________________________________
>>
>> Powered by www.kitware.com
>>
>> Visit other Kitware open-source projects at
>> http://www.kitware.com/opensource/opensource.html
>>
>> Kitware offers ITK Training Courses, for more information visit:
>> http://www.kitware.com/products/protraining.html
>>
>> Please keep messages on-topic and check the ITK FAQ at:
>> http://www.itk.org/Wiki/ITK_FAQ
>>
>> Follow this link to subscribe/unsubscribe:
>> http://www.itk.org/mailman/listinfo/insight-users
>>
>>
>
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://www.itk.org/pipermail/insight-users/attachments/20110217/8c8e14c2/attachment.htm>