Returns ROI masks given an atlas and a list of labels. Supports dilation and left right masking (assuming the atlas is properly aligned).
Inputs:
[Optional]
atlas : (an existing file name)
Location of the atlas that will be used.
dilation_size : (an integer)
Defines how much the mask will be dilated (expanded in 3D).
hemi : ('both' or 'left' or 'right')
Restrict the mask to only one hemisphere: left or right
labels : (an integer or a list of items which are an integer)
Labels of regions that will be included in the mask. Must be compatible with the atlas used.
output_file : (a file name)
Where to store the output mask.
Outputs:
mask_file : (an existing file name)
output mask file
Inputs:
[Mandatory]
threshold : (a float)
volumes to be thresholdedeverything below this value will be set to zero
volumes : (an existing file name)
volumes to be thresholded
Outputs:
thresholded_volumes : (an existing file name)
thresholded volumes