FreeSurfer Work Flows

FreeSurferWorkFlows describes processing workflows for FreeSurfer. FreeSurferWorkFlows includes:

Recommended:

BasicReconstruction (fully automated)
TroubleshootingReconstruction (where manual intervention is required when the automated programs fail)
HistoricalReconstruction (semi-automated, with routine use of manual edits to segmented white matter volume)
SubcorticalSegmentation (already included in Basic workflow, but must be done separately if using Historical workflow)

Use the BasicReconstruction workflow if you are just starting to process data. Use the HistoricalReconstruction workflow if you have already processed large amounts of data using previous versions of FreeSurfer which required manual edits, and you do not wish to reprocess them with the Basic workflow.

IMPORTANT: Whichever workflow you choose, be sure to process all your data using the same workflow.

User Contributed:

-  ⇤ ← Revision 11 as of 2005-08-12 14:46:17 → 
  Size: 652
  Editor: EvelinaBusa
  Comment:
+   ← Revision 26 as of 2005-08-12 18:27:29 → ⇥
  Size: 1229
  Editor: NickSchmansky
  Comment:
-Deletions are marked like this.
+Additions are marked like this.
 Line 7:
-Recommended:
 * BasicReconstruction (with no manual edits to the segmented wm volume)
 * IntermediateReconstruction
 * HistoricalReconstruction (with routine manual edits to the segmented wm volume)
 * SubcorticalSegmentation
+'''Recommended:'''
 * BasicReconstruction (fully automated)
 * TroubleshootingReconstruction (where manual intervention is required when the automated programs fail)
 * HistoricalReconstruction (semi-automated, with routine use of manual edits to segmented white matter volume)
 * SubcorticalSegmentation (already included in Basic workflow, but must be done separately if using Historical workflow)
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-User Contributed:
+Use the BasicReconstruction workflow if you are just starting to process data.
Use the HistoricalReconstruction workflow if you have already processed large amounts of data using previous versions of FreeSurfer which required manual edits, and you do not wish to reprocess them with the Basic workflow.  
  IMPORTANT:  Whichever workflow you choose, be sure to process ''all'' your data using the same workflow.     

'''User Contributed:'''
-Line 18:
+Line 22:
- * FreeSurferRemoteAccess