It contains the volumes of the white matter parcellation. You can make a
table with asegstats2table and specifying --stats=wmparc.stats
doug
On 03/05/2014 11:16 AM, Victor Kovac wrote:
> So, I assume the aseg.mgz contains the values represented in the
> asegstats2table, but what values does the
The wmparc is off because the surfaces are incorrect. The aseg does not
have to follow the surfaces, but wmparc does
doug
On 03/03/2014 03:10 PM, Victor Kovac wrote:
> Hi Bruce and Doug,
>
> "cp aseg.auto.mgz aseg.mgz" was my last step before running
> -autorecon2-cp -autorecon3, as suggested
I think that it should. To be safe, I would "cp aseg.auto.mgz aseg.mgz"
otherwise aseg.mgz will not change (any differences will be interpreted
as manual changes)
doug
On 03/02/2014 10:07 AM, Bruce Fischl wrote:
> Hi Victor
>
> hmmm, I'm not sure why that didn't work. Perhaps someone else can
Hi Victor
hmmm, I'm not sure why that didn't work. Perhaps someone else can
comment? Doug or Nick: if the aseg.mgz is recreated and you start with
-autorecon2-cp shouldn't it propagate the effects of the new aseg forward?
cheers
Bruce
On Thu, 27 Feb 2014, Victor Kovac wrote:
Dear Bruce,
H
Hi Victor
for each subject I think you want to run:
set mdir=$SUBJECTS_DIR/$subject/mri
mri_cc -aseg aseg.auto_noCCseg.mgz -o aseg.auto.mgz \
-lta $mdir/transforms/cc_up.lta $subject
cp aseg.auto.mgz aseg.mgz
then run recon-all from normalization2 forward (check the recon-all -help
for thes
Hi Victor
you can look in the recon-all -help and run the stages that are after
mri_ca_label. Not sure why -make all didn't work, perhaps Zeke and/or Nick
can comment?
Bruce
On Thu, 2 Jan 2014, Victor Kovac wrote:
Dear Bruce,
A few weeks ago you made code mods to mri_em_register and got r
Dear Bruce,
A few weeks ago you made code mods to mri_em_register and got recon-all to
process a subject of mine, MPS1036-1. You sent me the new
aseg.auto_noCCseg.mgz and told me to run recon-all -make all -s MPS1036-1.
I did this but I get the message
make: Nothing to be done for 'all'
and when