[Mristudio-users] quantifying motion and batch job

[Jeff Sadino]

Hello Hangyi,

My apologies for hijacking Weihong's thread, but I would also be very
interested in a command line version of the program.  Can you please let me
know where I can find it.  I would be happy to report back bug reports to
help improve it.

Thank you,
Jeff

On Thu, Aug 19, 2010 at 7:04 AM, susumu mori <susumu at mri.jhu.edu> wrote:

> Hi Weihong,
>
>
>  1. After registering the DWIs to b0, is there anyway to get some
>> quantification about the motion?It would be great if we can get the frame by
>> frame motion "magnitude" (rotation, translation, skew) data in the form of a
>> text file. Is there a existing function available in DTIStudio that can
>> allow me to do that?
>>
>
> Please see https://www.mristudio.org/wiki/changelog/dtistudio-3.0.2. There
> you can find a *.doc file explaining how you can check the motion correction
> results. In reality, the cross-contrast registration like b0-DWI is
> difficult and it is difficult to expect perfect registration. However, as
> the file explains, mutual information, although it takes longer, tends to
> perform better. AIR also has a strong dependence on threshold value.
>
> We are working on quantitative reporting of the registration results.
> Currently there is an option to save the transformation matrix in the text
> format.  When you start AIR, at the bottom of the AIR window, there is "Save
> transformation matrix" in the "Other" section.
>
>
>> 2. Is there a beta version of the software that can do some batch work? I
>> understand the quality checking for bad frame/slice/pixel always needs human
>> decision, as you have mentioned before. What about batch job for motion/eddy
>> current correction, or other procedure that may not need as much human
>> expertise?
>>
>
> Hangyi has a command-line version of the software. It may not support all
> the functions, but please contact him.
>
>
>>
>> Thanks in advance
>>
>> Weihong
>>
>>
>> Weihong Yuan, Ph.D.
>> Research Assistant Professor/McLaurin Fellow
>> Pediatric Neuroimaging Research Consortium
>> Imaging Research Center, Dept. of Radiology
>> Cincinnati Children's Hospital Research Foundation
>> 3333  Burnet Ave.
>> Cincinnati, OH 45229
>> Phone: 513-636-2862
>> FAX: 513-636-0434
>>
>>
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>
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