[Mristudio-users] NifTi and DTI Studio

Raj Jaswal raj.jaswal at gmail.com
Thu Sep 17 14:37:45 EDT 2009 

Hi all,

  In relation to what was mentioned a few weeks ago about a newer version of
DTI Studio that can read/write NIFTI ... I'm not able to see that
functionality.

  I downloaded the "DtiStudio-latest-x86.exe" file but did not see an option
to load NIFTI files.
  Should I have downloaded the beta "DtiStudio-3.0.1beta-x86.exe" file
instead? When clicking on the file for download, I get a 404 page error.

  If anyone can let me know where to get the updated s/w or if I'm making a
simple mistake I would appreciate it. Thanks.

- RJ

On Mon, Aug 31, 2009 at 12:20 PM, susumu mori <susumu at mri.jhu.edu> wrote:

> Hi venkateswaran
>
> 1) It seems the DtiStudio version currently posted in www.mristudio.orgalready has the function to read/write Nifty. Please check and send me
> feedbacks if you encounter and problems.
> 2) As for the "distortion correction", do you mean Eddy current distortion
> correction or B0 susceptibility correction? If the former is the case, you
> can use the Affine tool in DtiStudio.
> 3) As for the b-matrix rotation, do you mean the rotation for oblique-angle
> imaging that affect older Siemens system? If that is the case, it would be a
> complicated issue. The easiest way is, to read the Dicom/Mosaic directly to
> DtiStudio, which can automatically recalculate the b-table based on the
> oblique information in the header. Once you go through FLS and data is
> converted to Nifty/Analyze/Raw, the oblique information is lost. You can
> still trick DtiStudio in the following way, but it is a bit cumbersome.
>
> > Read Mosaic/Dicom directly to DtiStudio, provide the Siemens-provide
> original b-table, click the "rotation if applicable", and load the data.
> > Close the window and re-open the data input window. There you can find
> that b-table of the previous session still remembered by DtiStudio. This
> table is already rotated (not the original b-table anymore). You can use
> this table for the Raw data.
>
> 4) The b-table rotation option for oblique imaging doesn't work for
> Raw/Analyze/Nifty in DtiStudio. Do Analyze and Nifty have a field for
> oblique angles? If so, maybe Hangyi wants to see if we can make the option
> available for Analyze and Nifty.
>
>
>
> On Mon, Aug 31, 2009 at 11:49 AM, Rajagopalan, Venkateswaran <
> rajagov2 at ccf.org> wrote:
>
>> Dr.Mori,
>>
>> Sorry to intrude in Yuzheng's question section. I have the following
>> question, i am using FSL to perform distortion correction of DTI images,
>> after this i convert them into analyze format and open them in DTI studio
>> and save them as RAW format and then run "DTI mapping" to calculate FA and
>> other metrics, in answersing to a question in the forum on b-matrix rotation
>> you have indicated that with "RAW" format we cannot actually perform
>> b-matrix rotation option. Now the only way for me to bring the distortion
>> corrected images from FSL is by analyze format and save as RAW format so in
>> this case i am not able to do this b-matrix rotation, in some of my data i
>> observed that b-matrix is significantly rotated so i prefer to check the
>> b-matrix  rotation option in my data sets. Any suggestion on this.
>>
>> Thanks in advance,
>>
>> Regards
>> venkateswaran
>>
>> ________________________________
>>
>> From: mristudio-users-bounces at mristudio.org on behalf of susumu mori
>> Sent: Sat 8/29/2009 6:27 PM
>> To: DTI Studio, ROI Editor, Landmarker Questions/Support; Hangyi Jiang;
>> Xin Li
>> Subject: Re: [Mristudio-users] NifTi and DTI Studio
>>
>>
>> There is a newer version of DtiStudio that can read Nifty.
>> Hangyi and Xin, please work on posting the latest version with updated
>> features.
>> We'll notify users once a newer version is available on the web.
>>
>>
>> On Wed, Aug 26, 2009 at 12:22 PM, ??? <huyuzheng at gmail.com> wrote:
>>
>>
>>
>>                I use FSL to change nifti format to analyze and then use
>> DTI Studio to change analyze to dat format.
>>
>>
>>        Did you realy make it? I have used the same way but failed...
>>        If NIFITI files could be imported directly into the DTIStudio, it
>> will be wonderful. Hope some make it.
>>
>>        Yuzheng
>>
>>
>>
>>                JY
>>
>>
>> ________________________________
>>
>>                From: [Seongjin] <choisj70 at gmail.com>
>>                To: "DTI Studio, ROI Editor, Landmarker Questions/Support"
>> <mristudio-users at mristudio.org>
>>                Sent: Wednesday, August 26, 2009 5:37:58 AM
>>                Subject: [Mristudio-users] NifTi and DTI Studio
>>
>>
>>                Dear all,
>>
>>                Is there anybody know how to import NifTi format data into
>> DTI Studio?
>>
>>                -SC
>>
>>
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