Thanks! I am still unclear, however, on the unit value for the
thresholding. For instance, if you set it to .2 as in your example, it
is .2 what?
-Meredith
On Apr 10, 2006, at 11:02 PM, Steve Smith wrote:
> Hi Meredith,
>
>> First of all, it
>> looks as though the threshold that one can set in featquery refers to
>> % signal
>> change, but I wanted to verify whether that was the case.
>
> Hi - no, given that the thresholding might get applied to any of the
> different types of stats images, % would not be generally safe - the
> number entered after this option is exactly what's applied.
>
>> Also, I am running
>> featqueries on a feat that contains two copes. Featquery is
>> calculating stats for each
>> cope, including % signal change (as I was hoping), but I can't figure
>> out how to get
>> the accompanying mean time series information for each cope (voxels
>> in the ROI
>> that pass the threshold). It looks as though perhaps the mean time
>> series
>> information that is included is for all voxels that passed threshold
>> for either cope, but
>> I need that mean time series information for each cope separately. I
>> figure featquery
>> must calculate this somewhere since it is determining percent signal
>> change. How
>> might I access this information?
>
> Hi - if you click on the stats name (e.g. stats/cope1) you get the
> timeseries at the _max_ voxel. Featquery doesn't calculate the mean
> timeseries from the masked thresholded stats image. Do get that, you
> would:
>
> cd <whereever>.feat/featquery
> avwmaths ../stats/cope2 -mas mask -thr 0.2 -bin grot
> avwmeants -i ../filtered_func_data -o meants.txt -m grot
>
> Cheers, Steve.
>
>
> -----------------------------------------------------------------------
> ----
> Stephen M. Smith, Professor of Biomedical Engineering
> Associate Director, Oxford University FMRIB Centre
>
> FMRIB, JR Hospital, Headington, Oxford OX3 9DU, UK
> +44 (0) 1865 222726 (fax 222717)
> [log in to unmask] http://www.fmrib.ox.ac.uk/~steve
> -----------------------------------------------------------------------
> ----
>
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