[Neuroimaging] dipy model fit question

Joe Necus (PGR) J.Necus2 at newcastle.ac.uk
Mon May 15 03:44:25 EDT 2017


Hello,


Thank for your reply.


I was indeed using the median_otsu 'autocrop=True' option. By choosing 'False' I can ensure that my output images are maintained at the same dimensions as the original image.


I assume that the advantage of cropping the images is to reduce processing time.


Thanks,

Joe

________________________________
From: Neuroimaging <neuroimaging-bounces+j.necus2=ncl.ac.uk at python.org> on behalf of Eleftherios Garyfallidis <elef at indiana.edu>
Sent: 15 May 2017 01:38:00
To: Neuroimaging analysis in Python
Subject: Re: [Neuroimaging] dipy model fit question

The fitting cannot reduce the size of the image. Maybe you used median_otsu with autocrop True.

On Sun, May 14, 2017 at 8:31 PM Ariel Rokem <arokem at gmail.com<mailto:arokem at gmail.com>> wrote:
Hi Joe,

Would you mind posting the code that you ran? I am not sure that I understand what you mean by "the background is clipped".

Thanks!

Ariel

On Fri, May 12, 2017 at 9:16 AM, Joe Necus (PGR) <J.Necus2 at newcastle.ac.uk<mailto:J.Necus2 at newcastle.ac.uk>> wrote:

Hello,


I am just starting out with dipy and have a simple question.


After generating my mask and fitting a tensort model, the FA image which I obtain is reduced in size from the original image (as the background is clipped).


I would like to obtain the fa map back in the original data shape, is this possible?


Thanks,

Joe

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