Yep - that's right, though excluding the HTML files.
Cheers.
On Fri, 2 Apr 2004, Robin Goldman wrote:
> thanks!
> so running tsplot will give you all the files in the tsplot directory
> including the ps plots?
> R
>
> On Apr 1, 2004, at 7:08 PM, Stephen Smith wrote:
>
> > Hi Robin,
> >
> > If you run tsplot from the command line you can specify a different
> > voxel
> > to use with the -c option. There isn't an equivalent option for ROIs
> > yet
> > (though it's on the todo list) but you could (I think) kludge this
> > with:
> >
> > make a COPY of your FEAT directory to work in, then in there:
> >
> > avwstats <ROIMASKIMAGE> -v -V
> > then set <RATIO> to output1 divided by output3 (this will keep
> > absolute
> > values the same in the next command)
> >
> > foreach i ( filtered_func_data mask stats/*hdr )
> > avwmaths_32R $i -mas <ROIMASKIMAGE> -Xmean -Ymean -Zmean -mul
> > <RATIO> $i
> > end
> > (this averages each image over the ROI)
> >
> > /bin/rm tsplot/*
> > tsplot . -c 0 0 0 -o tsplot
> >
> > this won't recreate the web page but all the text files and GIF images
> > are
> > created in the tsplot subdir.
> >
> >
> > You're nearly right; but the PS plots are created by averaging the
> > model
> > fits across epochs, not by refitting within the epochs. So the green
> > and
> > blue lines are the averaged model fits, and the data isn't averaged,
> > but
> > fully plotted showing its spread.
> >
> > cheers :)
> >
> >
> > On Thu, 1 Apr 2004, Robin Goldman wrote:
> >
> >> Hi there,
> >>
> >> Is it possible to get peri-stimulus plots for an ROI? Or for a voxel
> >> other than the peak voxel?
> >>
> >> And let me make sure I understand what you have done to get the
> >> peri-stimulus plots. You have
> >> taken the data time course for the peak voxel in a given contrast and
> >> plotted this time course
> >> broken up into "epochs," where the start time for each of these
> >> epochs is defined by the event
> >> timing given in each EV. So, one plot per EV. You then fit these
> >> points to get an estimate of the
> >> response shape at that voxel for that event type. Is this right? Not
> >> quite, I think, or you'd call it a
> >> "data fit" instead of a "full model fit"... And I assume the EV model
> >> fit is the same in the data and
> >> reduced data plots, yes?
> >>
> >> And one more question -- how do you model the data to get a
> >> resolution of 1 second?
> >>
> >> Thanks!
> >> Robin
> >>
> >
> > 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
> >
> >
> ________________________
> Robin Goldman, Ph.D.
> Hatch Center for MR Research
> Columbia University
> 710 W. 168th Street, NIB-1
> New York, NY 10032
> (212) 342-0867
>
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
|