JWinawer
commented
4 years ago The INPLANE view is for viewing the slices as they were acquired. The code does not reslice in the inplane view. You could transfer to the volume 3-view if you would like to see different planes.
Jon
On Sun, Mar 1, 2020 at 13:17 maalbe notifications@github.com wrote:
Dear mrVista experts, I am writing because I am trying to do retinotopy using mrVista and I’ve been having some problems with the inplane. We did not collect an inplane, so I did the average of a functional scan and used this as an inplane using the code you provided in #179 https://urldefense.proofpoint.com/v2/url?u=https-3A__github.com_vistalab_vistasoft_issues_179&d=DwMFaQ&c=slrrB7dE8n7gBJbeO0g-IQ&r=W4u2U_DhoNoJOD0UdsYQiqH56Bg3zFfOtNa0RCuuEIs&m=P-KI4bH72lEvgdCOyZP1I8uMYCNN_-qrX3uv4nZpHxY&s=uQ6bzIwEd437TtSHJnGXszSlr7kmyO40tvoqOBmqsxs&e= :
ni = niftiRead('myEPI.nii'); data = mean(niftiGet(ni, 'data'), 4); ni = niftiSet(ni, 'data', data); dims = niftiGet(ni, 'dim'); ni = niftiSet(ni, 'dim', [dims(1:3) 1]); ni.fname = 'myInplane.nii'; niftiWrite(ni);I
But when displaying the inplane both in mrVista and rxAlign the orientation is axial, and I would like to have the coronal.
Is there a way to change this display? Is there any other way to get the inplane when you only have the functionals and the t1?
I would really appreciate some help, Thank you so much in advance:)
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Dear mrVista experts, I am writing because I am trying to do retinotopy using mrVista and I’ve been having some problems with the inplane. We did not collect an inplane, so I did the average of a functional scan and used this as an inplane using the code you provided in #179:
ni = niftiRead('myEPI.nii'); data = mean(niftiGet(ni, 'data'), 4); ni = niftiSet(ni, 'data', data); dims = niftiGet(ni, 'dim'); ni = niftiSet(ni, 'dim', [dims(1:3) 1]); ni.fname = 'myInplane.nii'; niftiWrite(ni);I
But when displaying the inplane both in mrVista and rxAlign the orientation is axial, and I would like to have the coronal.
Is there a way to change this display? Is there any other way to get the inplane when you only have the functionals and the t1?
I would really appreciate some help, Thank you so much in advance:)