Name

brain_roi - Extract brain ROI signals

Synopsis

brain_roi [-h] -nif BrainAct -mask Mask [-method Method] -out Output

Arguments

Required Arguments

Argument	Discription
nif	brain activation image
mask	brain mask image Each non-zero value will be regarded as a ROI label.
out	Output file with suffix as .roi.h5

Optional Arguments

Argument	Discription
method	choices=(mean, max, std) Method to summary signals in ROI. (default: mean)

Outputs

The output is a .roi.h5 file, which contains each ROI’s signal.

Examples

Calculate each ROI’s mean signal in nif.nii.gz. The ROIs are specified by ROI labels in mask.nii.gz. Save results to out.roi.h5.

brain_roi -nif nif.nii.gz -mask mask.nii.gz -method mean -out out.roi.h5