Dear Fsl experts,
I am trying to use fslstats command to get z-scores value for every subject and the mean z-score value, as well as standard deviation...but I am a little lost with the parameters.
Any help would be very appreciate.
Warm regards,
Rosalia.
Usage: fslstats [-t] <input> [options]
-t will give a separate output line for each 3D volume of a 4D timeseries
Note - options are applied in order, e.g. -M -l 10 -M will report the non-zero mean, apply a threshold and then report the new nonzero mean
-l <lthresh> : set lower threshold
-u <uthresh> : set upper threshold
-r : output <robust min intensity> <robust max intensity>
-R : output <min intensity> <max intensity>
-e : output mean entropy ; mean(-i*ln(i))
-E : output mean entropy (of nonzero voxels)
-v : output <voxels> <volume>
-V : output <voxels> <volume> (for nonzero voxels)
-m : output mean
-M : output mean (for nonzero voxels)
-s : output standard deviation
-S : output standard deviation (for nonzero voxels)
-w : output smallest ROI <xmin> <xsize> <ymin> <ysize> <zmin> <zsize> <tmin> <tsize> containing nonzero voxels
-x : output co-ordinates of maximum voxel
-X : output co-ordinates of minimum voxel
-c : output centre-of-gravity (cog) in mm coordinates
-C : output centre-of-gravity (cog) in voxel coordinates
-p <n> : output nth percentile (n between 0 and 100)
-P <n> : output nth percentile (for nonzero voxels)
-a : use absolute values of all image intensities
-n : treat NaN or Inf as zero for subsequent stats
-k <mask> : use the specified image (filename) for masking - overrides lower and upper thresholds
-h <nbins> : output a histogram (for the thresholded/masked voxels only) with nbins
-H <nbins> <min> <max> : output a histogram (for the thresholded/masked voxels only) with nbins and histogram limits of min and max
Note - thresholds are not inclusive ie lthresh<allowed<uthresh
rosi@rosi-HP-Pavilion-dv9700-Notebook-PC:~$
