Difference between revisions of "2011 Winter Project Week:Breakout Slicer with Ron"
From NAMIC Wiki
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*Registration (Dominik Meier, Hans Johnson) | *Registration (Dominik Meier, Hans Johnson) | ||
**Register everything to the SPGR data | **Register everything to the SPGR data | ||
| + | ***[[Projects:SlicerFAQ:DWI_Registration|basic concept and outline on FAQ]] | ||
| + | ***[[Projects:SlicerFAQ:DWI_Registration#Caveats|List of special caveats pertaining to DTI registration and resampling]] | ||
| + | ***[[Projects:RegistrationDocumentation:UseCaseInventory:BrainIntraDTI|overview of all DTI cases currently in the registration case library]] | ||
| + | ***[[Projects:RegistrationLibrary:RegLib_C27|Similar case with step-by-step instructions, incl. DWI conversion and resampling]] | ||
| + | ***[[Projects:RegistrationLibrary:RegLib_C29|Case showing 2-step registration DWI -> T2 -> T1 (direct to T1 fails)]] | ||
| + | ***[[Projects:RegistrationLibrary:RegLib_C03|very complex case incl. anisotropy resampling, masking, manual initial alignment]] | ||
**Resample as needed (DTI, T2 Baseline) | **Resample as needed (DTI, T2 Baseline) | ||
*Compareview (Jim Miller) | *Compareview (Jim Miller) | ||
Revision as of 22:03, 17 November 2010
Home < 2011 Winter Project Week:Breakout Slicer with RonBack to Project Week Agenda
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
Logistics
- What: Advanced capabilities in Slicer
- Who: All the new DBP engineers, all the participants new to NA-MIC
- When: Wednesday afternoon: 1pm through 3pm
- Where: Room XXXX
Data
- Image data used
Case 40 from the fMRI neurosurgery data set on central.xnat.org
T1 Weighted SPGR image
T2 weighted Bzero image derived from the DWI acquisition
FLAIR image
SPGR after injection of Gd
DTI color by orientation overlayed over T2 baseline
Preliminary Program
- 10 minutes or less per segment
- Comply with Rons Rules for Tools
- Registration (Dominik Meier, Hans Johnson)
- Register everything to the SPGR data
- basic concept and outline on FAQ
- List of special caveats pertaining to DTI registration and resampling
- overview of all DTI cases currently in the registration case library
- Similar case with step-by-step instructions, incl. DWI conversion and resampling
- Case showing 2-step registration DWI -> T2 -> T1 (direct to T1 fails)
- very complex case incl. anisotropy resampling, masking, manual initial alignment
- Resample as needed (DTI, T2 Baseline)
- Register everything to the SPGR data
- 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)
- 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)
Attendees
- Ron Kikinis
- Steve Pieper
- UCLA DBP Engineer: Andrei Irimia
- Iowa DBP Engineer: Mark Scully
- MGH DBP Engineer:
- Utah DBP Engineer: Josh Cates
- Utah DBP Engineer: Josh Bauer
