[Mristudio-users] DTI mapping using nifti files

[susumu mori]

This means the number of images in your image file and the number of images
supposed to be based on your gradient table are not matching.
If you are using Philips scanners, this happens because they append one
calculated image at the end. Therefore, there is always one more image than
expected. In this case, you can simply ignore the message or add one extra
line in the gradient table with "100, 100, 100", which sends a message to
DtiStudio to discard it.

If you are not using Philips, then you need to check the number of images
by loading the images by Mri3DView first. If there are 30 images, then your
gradient table also has to have 30 rows (0 - 29).

The common mistakes are;

> The image matrix size is wrong.
> The number of image (gradient table rows) is wrong.
> Your gradient table has syntax errors and DtiStudio can see fewer rows.
You can close the image viewing window after load the data (ignore the
message) and reopen the data-loading window. There, DtiStudio remembers the
gradient table you specified last time, in the way DtiStudio interpret.
Check if the number of rows.

On Wed, Mar 6, 2013 at 11:32 AM, Nida Sajjad <nidasajjad958 at hotmail.com>wrote:

> Thanks a lot
> There is one problem when i tried to load my Raw files in dti mapping it
> shows error that number of files in this fold is less than expected
> (image_slices*images_blocks)
>
> how to deal with this?
>
> Thanks a lot again
>
> ------------------------------
> Date: Wed, 6 Mar 2013 10:29:22 -0500
> From: susumu at mri.jhu.edu
> To: mristudio-users at mristudio.org
> Subject: Re: [Mristudio-users] DTI mapping using nifti files
>
> Hi Nida,
>
> We are still working on Nifty formats.
> You can try using the "Load" function of DtiStudio. There is an option to
> read Nifty.
> Once you successfully load the file, you can then save them in REC (raw)
> or Analyze.
> However, at this moment, we can't guarantee the brain orientation,
> especially right and left. You have to confirm it by comparing with other
> programs.
>
> DtiStudio/MriStudio assume data are directly from scanners to avoid any
> confusion about image orientation (radiology-neurology convention), matrix
> definition (right or left hand), coordinate definition (where is 0,0,0 in
> the matrix), XYZ definition, and oblique angle information. Once the data
> went through other programs, we can't keep track of all the potential
> definition differences. Then users need to mix different programs with own
> responsibility.
>
> Susumu
>
> On Wed, Mar 6, 2013 at 9:06 AM, Nida Sajjad <nidasajjad958 at hotmail.com>wrote:
>
> Hi,
>
> I have data set of DTI images of patients in the form of nifti files. I
> want to use DTI mapping in DTI studio to calculate FA and MD of specific
> ROI after creating them. Can you tell me best way to convert my data to be
> useable in DTI mapping.
>
> Thanks,
> Regards,
> Nida
>
> ------------------------------
> Date: Tue, 5 Mar 2013 21:56:36 -0500
> From: deepa.krishnaswamy1 at gmail.com
> To: mristudio-users at mristudio.org
> Subject: [Mristudio-users] btable of Siemens Mosaic sample dataset
>
> Hi,
> I believe that there are discrepancies with the sample Siemens Mosaic
> dataset. In the sample dataset, the gradient table is provided. The
> gradient table can of course also be read from the DICOM header. I
> performed the pipeline using both methods, and noticed that the results are
> different. I think that the b vectors are not the same, and also the bvalue
> suggested (700), is incorrect as a value of 800 is read from the DICOM
> header.
> Of course most people would obtain the btable from the header, so this is
> not a major issue, but I wanted to point it out in case someone uses the
> btable provided in the given text file.
> Thanks,
>
> Deepa
>
>
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