please cc the list so others can answer. Do you mean get cortical
thickness? If so, then you need to run recon-all on the structural image
On Mon, 17 Jun 2013, xiangbo_2010
wrote:
I have obtained the mask from xjview (.img), I want to obtain the CT from
the mask, thanks!
Bo
At 2013-06-17 22:40:43,"Bruce Fischl" <fis...@nmr.mgh.harvard.edu> wrote:
>what are you trying to map to the surface?
>On Mon, 17 Jun 2013, xiangbo_2010
>wrote:
>
>>
>> Hi Bruce
>> Thank you for my help, when I use the bbregister, do not know how to choo
se
>> data for --mov, thanks!
>>
>> Bo
>>
>>
>>
>>
>> At 2013-06-17 20:34:39,"Bruce Fischl" <fis...@nmr.mgh.harvard.edu> wrote:
>> >Hi Bo,
>> >
>> >tksurfer doesn't take a path to a file. Read the help on it - you need t
o
>> >reconstrcut the subject with recon-all then give it the subject id. To
>> >project a volumetric map onto the surface use mri_vol2surf, with the
>> >registration typically computed by bbregister.
>> >
>> >cheers
>> >Bruce
>> >
>> >
>> >On Mon, 17 Jun 2013, xiangbo_2010 wrote:
>> >
>> >> Hi dougThank you for giving this information, I used the
>> >command: "/tksurfer fsaverage lh inflated -aparc -mni152reg -overlay /pa
thn
>> ame/to/s
>> >> pm/roi/yourfile.img/", but do not have results for me, and do not know
ho
>> w
>> >> to do next? thanks!
>> >>
>> >>
>> >> Bo
>> >>
>> >>
>> >>
>> >>
>> >>
>> >> At 2013-06-06 23:04:30,"Douglas N Greve" <gr...@nmr.mgh.harvard.edu> w
rot
>> e:
>> >> >Hi Stephanie, I don't know which recommendation you are referring to.
We
>>
>> >> >get a lot of emails, and I can't remember each one. Can you repost wi
th
>> >> >the full thread?
>> >> >doug
>> >> >
>> >> >
>> >> >On 06/06/2013 10:40 AM, McMains, Stephanie wrote:
>> >> >> I am wondering why you didn't tell them to go through fsvarege spac
e?
>> >> >> I thought that was an easy way to go from SPM MNI to freesurfer la
nd.
>> >> >>
>> >> >>> /tksurfer fsaverage lh inflated -aparc -mni152reg -overlay /pathna
me/
>> to/
>> >> spm/roi/yourfile.img/
>> >> >>
>> >> >>
>> >> >> I am wondering because when I look at the segmentation for fsaverag
e,
>> >> >> it seems like it is missing a lot of the gray matter, particularly
in
>> >> >> the big sulci, most likely from the 'smoothing' that comes with
>> >> >> averaging subjects together. And therefore I wonder if this is the
>> >> >> best thing to use as an intermediate step. Are you instead suggest
ing
>>
>> >> >> (as it seemed like in this thread), to put the SPM roi into individ
ual
>>
>> >> >> subject space and then somehow project it to the surface in free su
rfe
>> r?
>> >> >>
>> >> >> Thanks,
>> >> >> Stephanie
>> >> >>
>> >> >>
>> >> >> +++++++++++++++++++++++++
>> >> >>
>> >> >> Stephanie McMains
>> >> >> Neuroimaging Staff Scientist
>> >> >> Center for Brain Science
>> >> >> Harvard University
>> >> >> 52 Oxford Street
>> >> >> Cambridge, MA 02138
>> >> >>
>> >> >> +++++++++++++++++++++++++
>> >> >> For answers to frequently asked questions:
>> >> >> http://cbs.fas.harvard.edu/science/core-facilities/neuroimaging/inf
orm
>> ati
>> >> on-investigators/faq
>> >> >>
>> >> >>
>> >> >>
>> >> >>
>> >> >>
>> >> >>
>> >> >>
>> >> >>
>> >> >>
>> >> >> _______________________________________________
>> >> >> Freesurfer mailing list
>> >> >> Freesurfer@nmr.mgh.harvard.edu
>> >> >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
>> >> >
>> >> >--
>> >> >Douglas N. Greve, Ph.D.
>> >> >MGH-NMR Center
>> >> >gr...@nmr.mgh.harvard.edu
>> >> >Phone Number: 617-724-2358
>> >> >Fax: 617-726-7422
>> >> >
>> >> >Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
>> >> >FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2
>> >> >www.nmr.mgh.harvard.edu/facility/filedrop/index.html
>> >> >Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/gre
ve/
>> >> >
>> >> >_______________________________________________
>> >> >Freesurfer mailing list
>> >> >Freesurfer@nmr.mgh.harvard.edu
>> >> >https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
>> >> >
>> >> >
>> >> >The information in this e-mail is intended only for the person to who
m i
>> t i
>> >> s
>> >> >addressed. If you believe this e-mail was sent to you in error and th
e e
>> -ma
>> >> il
>> >> >contains patient information, please contact the Partners Compliance
Hel
>> pLi
>> >> ne at
>> >> >http://www.partners.org/complianceline . If the e-mail was sent to yo
u i
>> n e
>> >> rror
>> >> >but does not contain patient information, please contact the sender a
nd
>> pro
>> >> perly
>> >> >dispose of the e-mail.
>> >> >
>> >>
>> >>
>> >>
>> >>
>>
>>
>>
>>
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.
