Hi Jane - did you find the problem with this? If the first-level
registrations look fine but the second-level results look like they have
registration issues then something strange is going on - if you create a
tarfile of the gfeat and an example first-level feat we can look into
this. if you put the tarfile on a web/ftp site we can download and look.
Cheers.
On Tue, 9 Mar 2004, Jane Aspell wrote:
> hi stephen
>
> yes - they all seem fine.
>
> jane
>
>
> In message <[log in to unmask]> FSL
> - FMRIB's Software Library <[log in to unmask]> writes:
> > Hi - there may be a few things going on here. Could you start by looking
> > at the registration report page for each first-level analysis (click on
> > the summary registration overlay image towards the bottom of the
> > first-level FEAT output web page). Do all stages look like they worked ok?
> >
> > Cheers.
> >
> >
> >
> > On Mon, 8 Mar 2004, Jane Aspell wrote:
> >
> > > Hi
> > >
> > > Thanks for all the previous help. I've a question about rendering in higher
> > > level analysis...my lower level feat directories are all from a single
> > > subject and in the higher level analysis i want to render the activations
> > > onto the high res structural image for this subject. i chose the render onto
> > > 'first highres' option as i thought that would achieve this. when i open the
> > > resulting 'rendered_threshzstat1.hdr' for example, it seems that is has used
> > > the correct image but it looks distorted - the frontal and occipital cortex
> > > look squashed. the image also looks blurred.
> > > i wanted to overlay some masks i have from a retinotopic scan onto the high
> > > res image showing activations. the masks show the location of the lower
> > > visual areas and they normally overlay onto the same sturctural image that i
> > > selected for the higher level analysis but i am not able to put together the
> > > high res, the activations and the masks at once -'cannot load incompatible
> > > overlay'.
> > > can you explain why the subject's high res seems to have been distorted by
> > > the higher level analysis and why i can't overlay my masks onto the highres
> > > image showing activations?
> > >
> > > thanks very much
> > >
> > > Jane Aspell
> > >
> >
> > Stephen M. Smith DPhil
> > Associate Director, FMRIB and Analysis Research Coordinator
> >
> > Oxford University Centre for Functional MRI of the Brain
> > John Radcliffe Hospital, Headington, Oxford OX3 9DU, UK
> > +44 (0) 1865 222726 (fax 222717)
> >
> > [log in to unmask] http://www.fmrib.ox.ac.uk/~steve
> >
>
> --
> Dr Jane Aspell
> Department of Experimental Psychology, University of Oxford,
> South Parks Road, Oxford, OX1 3UD
> tel: +44 (0)1865-281606
>
Stephen M. Smith DPhil
Associate Director, FMRIB and Analysis Research Coordinator
Oxford University Centre for Functional MRI of the Brain
John Radcliffe Hospital, Headington, Oxford OX3 9DU, UK
+44 (0) 1865 222726 (fax 222717)
[log in to unmask] http://www.fmrib.ox.ac.uk/~steve
|