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To Make Tables and Overlays

Page history last edited by PBworks 12 years, 2 months ago

To Make Overlays

 

1) In Medx: save Zmap as Zmap.hdr

2) In Terminal: thresholdAndCreateClusters Zmap.img nameClustermask.hdr 2.33 25 26 0

3) In Terminal: ThresholdOverlay.csh Clustermask.img Zmap.img

4) In Medx: Add Color - DeactandActOverlays.lut

 

To Make Tables

 

In a new terminal do the following:

 

1) cd to the folder in which clustermasks and zmaps are saved

2) detect_blobs Clustermask.img [determines # of clusters]

3) findHighestValue... Zmap.img Clustermask.img cluster#(1) > #.xls

4) FindLocalMaxesWithinClusters Zmap.img threshold(25) Clustermask.img > LocalMaxes.xls

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