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Dear FSL, I have used FEAT for preprocessing, What should I do to obtain a better structural-to-standard registration,I have used non linear registration for preprocessing Thanks VasudevC On Tue, Feb 18, 2020 at 6:47 PM paul mccarthy <[log in to unmask]> wrote: > Hi Vasudev, > > I'm afraid I have to disagree - the structural-to-standard registration is > quite poor. It looks like the structural brain extraction could be > improved, as there is a strange bright artifact in the posterior region of > the image qhich is throwing off the alignment. > > However, even with an improved brain extraction, you may still need to > tune the registration further, as the image is quite atypical with respect > to the MNI152. > > Paul > > On Feb 18 2020, at 5:28 pm, Dev vasu <[log in to unmask]> > wrote: > > Dear Sir, > > For me the quality of registrations look ok, if possible, can you see them > through this link > > https://www.dropbox.com/s/6fynlzv1e0sf243/example_func2highres.png?dl=0 > https://www.dropbox.com/s/dmm9iy46cs6i78z/example_func2standard.png?dl=0 > https://www.dropbox.com/s/sjfrkzbbbb1btj0/highres2standard.png?dl=0 > > Thanks > Vasudev > > On Tue, Feb 18, 2020 at 6:18 PM paul mccarthy <[log in to unmask]> > wrote: > > Hi Vasudev, > > Your command looks ok, so the problem might be with the registration > itself - what is the quality of the functional to structural, and > structural to standard registrations? > > Paul > > On Feb 18 2020, at 4:01 pm, Dev vasu <[log in to unmask]> > wrote: > > Dear all, > > I was trying to transform the Visual cortex mask into functional space to > extract time series but the result of transform is very bad > > I am annexing the figures to show the result of mask transform for your > reference. > > I have used following procedure to apply transform on my mask Visual.nii.gz > > applywarp -i Visual_MNI.nii.gz. -r reg/example_func.nii.gz -o Visual_func > --postmat=reg/highres2example_func.mat -w reg/highres2standard_warp_inv > > and the result can be seen in this image , seed Visual_MNI is attached for > your reference. > > > > > > > > Thanks > Vasudev > > To unsubscribe from the FSL list, click the following link: > https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1 > > > To unsubscribe from the FSL list, click the following link: > https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1 > > > To unsubscribe from the FSL list, click the following link: > https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1 > > > ------------------------------ > > To unsubscribe from the FSL list, click the following link: > https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1 > ######################################################################## To unsubscribe from the FSL list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1