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fScan Reference Manual, Chapter 2 (CmdLineOptions): clusters
The CLUSTER type ROI assumes that the current data set is an ROI mask image (in which regions are defined by voxels with the same intensity value). The CLUSTER command uses the input mask image to create an ROI list (name=NAME) of CLUSTER type ROIs where each cluster is defined by its mask value. For each CLUSTER, the center-of-mass location and the radius along the 3 principal axes are stored. By default, the new ROI list is attached to the input mask data set.
The ROI command can also be used to manipulate existing ROI's.
-roi CLUSTER refimage flag name
This assumes roi mask image as input. It creates an ROI list (name=NAME) of clusters where each cluster is defined by its mask value. For each cluster, store center-of-mass and radius along principal axes. If REFIMAGE, find peak intensity value and voxel location. By default, ROI list is attached to input mask images.
FLAG: (no values yet)
NAME: name of ROI list. If omitted, list is linked to input mask images.
-roi MERGE refimage flag name minvalley minsize mindist
The MERGE command assumes that the current image is an ROI mask.
MERGE edits the ROI list. Merge adjacent clusters if:
FLAG: 2 - do not modify input mask image values when editting ROI list (i.e. if merging ROI clusters, change merged mask values)
NAME: name of ROI list. If omitted, list is linked to input mask images.
MINVALLEY: (default= 60% of lower peak maximum)
MINSIZE: (default= 5 voxels)
MINDIST: (default= 40 mm)
See Also:
ROIs,
Create ROIs,
Create ROIs,
Edit ROIs,
ROI Stats