| Deletions are marked like this. | Additions are marked like this. |
| Line 4: | Line 4: |
| ||brainmask || ||X|| || || || | ||brainmask || ||X || || || || |
| Line 6: | Line 6: |
| ||aseg ||X|| || || || || | ||aseg ||X || || || || || |
| Line 8: | Line 8: |
|
||seed point, watershed ||X|| || || || || ||cw256 ||X|| || || || || |
||seed point, watershed ||X || || || || || ||cw256 ||X || || || || || |
| Line 16: | Line 16: |
| * After editing the base (only wm.mgz edits), must run both -autorecon2 & -autorecon3 for longitudinal runs to run successfully. | * After editing the base (for wm.mgz and CPs edits), must run both -autorecon2 & -autorecon3 for longitudinal runs to run successfully. |
| Line 21: | Line 21: |
|
||brainmask || ||affected long surfs|| || || || ||wm ||edits copied to long when long run from scratch; <<BR>>surfs for base and long unchanged ||affected long surfs|| || ||test edits in cross w/o removing long || ||aseg ||edits copied to long but changes are unpredictable|| || || || || |
||brainmask || ||affected long surfs || || || || ||wm ||edits copied to long when long run from scratch; <<BR>>surfs for base and long unchanged ||affected long surfs || || ||test edits in cross w/o removing long || ||aseg ||edits copied to long but changes are unpredictable || || || || || |
| Line 25: | Line 25: |
|
||seed point, watershed ||can only adjust wsthresh for cross; <<BR>>edits copied to base ||n/a||n/a|| || || ||cw256 ||only have to use this flag once w/ recon-all for cross||n/a||n/a|| || || |
||seed point, watershed ||can only adjust wsthresh for cross; <<BR>>edits copied to base ||n/a ||n/a || || || ||cw256 ||only have to use this flag once w/ recon-all for cross ||n/a ||n/a || || || |
| Line 30: | Line 30: |
|
|
Done
Edit Type |
cross |
base |
long |
flag |
additional scenarios |
control points |
X |
|
|
|
|
brainmask |
|
X |
|
|
|
wm |
X |
|
|
|
|
aseg |
X |
|
|
|
|
brainfinalsurfs |
|
|
|
|
|
seed point, watershed |
X |
|
|
|
|
cw256 |
X |
|
|
|
|
talairach |
|
|
|
|
|
xopts |
|
|
|
|
|
seed point, fill & cut |
|
|
|
|
|
Notes
* After editing the base (for wm.mgz and CPs edits), must run both -autorecon2 & -autorecon3 for longitudinal runs to run successfully.
* After editing the cross-sectionals, it is ok to just run -autorecon2 without -autorecon3.
Edit Type |
cross |
base |
long |
flag |
additional scenarios |
control points |
affected base surfs |
|
|
|
|
brainmask |
|
affected long surfs |
|
|
|
wm |
edits copied to long when long run from scratch; |
affected long surfs |
|
|
test edits in cross w/o removing long |
aseg |
edits copied to long but changes are unpredictable |
|
|
|
|
brainfinalsurfs |
|
|
|
|
|
seed point, watershed |
can only adjust wsthresh for cross; |
n/a |
n/a |
|
|
cw256 |
only have to use this flag once w/ recon-all for cross |
n/a |
n/a |
|
|
talairach |
|
|
|
|
|
xopts |
|
|
|
|
|
seed point, fill & cut |
|
|
|
|
|