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
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