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Home < 2011 Winter Project Week:Breakout Slicer with Ron

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Moderator: Ron Kikinis

Introduction

This is an advanced topic presentation on Slicer abilities. The intention is to familiarize the NA-MIC community with Slicer abilities.
You have mastered the introductions and you are hungry for more.... :)
- This means that we expect you to at least have worked through the Core Tutorials before this class.
Ron and the creators of modules will show you advanced capabilities in Slicer 3.6

Registration (Dominik Meier, Hans Johnson)
- Register everything to the SPGR data: complete. Data, transforms and instructions available here: Reg.Lib Case 33
- additional info:
- Resample as needed (DTI, T2 Baseline):
  - transforms available here: Reg.Lib Case 33
Compareview (Jim Miller)
Scenesnapshots (Wendy Plesniak, Alex Yarmarkovic)
Simple measurements and fiducials (Nicole Aucoin)
Interactive editor (Steve Pieper)
Fast segmenters: Fast Marching, RSS, GrowCutSegment (Andrey Fedorov, Yi Gao, Harini Veeraraghavan)
- Fast Marching demo scene
  - inner part of the tumor segmented from SPGR
  - outer part of the tumor segmented from post-Gad
  - WM and GM segmented from N4-processed SPGR (WM segmentation of the original SPGR volume is included, note under-segmented WM in the skull base)
  - all segmentations were done using FastMarching, fiducials are included for each of the segmentations
  - no fine-tuning of the fiducial locations was done -- this is an example result one can get almost right away
  - rule of thumb in placing fiducials: try to cover uniformly the volume you are trying to segment; this is particularly important for large structures like WM/GM
DTI processing (Alex Yarmarkovic, Demian Wasserman)
Volume Cropping (Andrey Fedorov)
Keyboard and mouse shortcuts (Steve Pieper)
Volume Rendering (Yanling Liu/Alex Yarmarkovic)
EM segmentation (Kilian Pohl)

@@ Line 41: / Line 41: @@
 *Interactive editor (Steve Pieper)
 *Fast segmenters: Fast Marching, RSS, GrowCutSegment (Andrey Fedorov, Yi Gao, Harini Veeraraghavan)
-** [[Media:AHM2011_CropVolume_FastMarching_demo.tgz|preliminary scene from Andrey (details to be added)]]
+** [[Media:AHM2011_CropVolume_FastMarching_demo.tgz|Fast Marching demo scene]]
+*** inner part of the tumor segmented from SPGR
+*** outer part of the tumor segmented from post-Gad
+*** WM and GM segmented from N4-processed SPGR (WM segmentation of the original SPGR volume is included, note under-segmented WM in the skull base)
+*** all segmentations were done using FastMarching, fiducials are included for each of the segmentations
+*** no fine-tuning of the fiducial locations was done -- this is an example result one can get almost right away
+*** rule of thumb in placing fiducials: try to cover uniformly the volume you are trying to segment; this is particularly important for large structures like WM/GM
 *DTI processing (Alex Yarmarkovic, Demian Wasserman)
 *Volume Cropping (Andrey Fedorov)