[Neuroimaging] Two (beginner) questions for DiPy
arokem at gmail.com
Tue Jan 31 16:54:16 EST 2017
On Mon, Jan 30, 2017 at 11:20 PM, Wiestler, Benedikt <b.wiestler at tum.de>
> Dear Ariel,
> thank you very much for your very helpful reply reg. B-Matrix rotation!
> Could you also point out to me how I input a 4D DTI stack (B0 first, then
> some B1000s) for affine co-registration?
That requires a bit more code. I wrote something in that direction here:
but I haven't had a lot of opportunities to test/tweak this. Feel free to
use that as a starting point.
> Dr. med. Benedikt Wiestler
> Abteilung für Neuroradiologie
> Klinikum rechts der Isar, TU München
> Ismaninger Str. 22
> 81675 München
> *From:* Neuroimaging <neuroimaging-bounces+b.wiestler=tum.de at python.org>
> on behalf of Ariel Rokem <arokem at gmail.com>
> *Sent:* Monday, January 30, 2017 23:04
> *To:* Neuroimaging analysis in Python
> *Subject:* Re: [Neuroimaging] Two (beginner) questions for DiPy
> Hi Benedikt,
> On Mon, Jan 30, 2017 at 2:48 AM, Benedikt Wiestler <b.wiestler at tum.de>
>> Dear all,
>> first of all thank you very much for making DiPy publicly available.
>> I am new to Python and diffusion imaging (I have worked before with R and
>> genetics), and have two (hopefully easy) questions:
>> 1) As input, I have a 4D nifti image with my B0 and B1000 images stacked.
>> How can I run an affine registration (for motion / eddy correction) on this
>> stack, using the first B0 image as fixed image and the remaining images
>> (one after another) as moving images? Or do I have to split the stack first?
>> 2) How do I rotate the B-matrix after registration?
> This function will do that: https://github.com/nipy/
>> Thanks a lot!
>> Dr. med. Benedikt Wiestler
>> Abteilung für Neuroradiologie
>> Klinikum rechts der Isar, TU München
>> Ismaninger Str. 22
>> 81675 München
>> Neuroimaging mailing list
>> Neuroimaging at python.org
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