Re: [Freesurfer] Freesurfer for stroke subjects?

2010-05-19 Thread Bruce Fischl
Hi Han, it depends on the size of the resection/stroke. For small ones it should be okay, but larger ones can require a lot of work (or be close to impossible). cheers Bruce On Wed, 19 May 2010, Cheol Han wrote: > Hello Freesurfers > > We are going to handle some subjects with stroke or subject

Re: [Freesurfer] Freesurfer for stroke subjects?

2010-05-19 Thread Cheol Han
Hi Bruce. Thanks for your answer. What should I do for a larger one like removal of almost all of temporal lobe or prefrontal cortex. Modifying wm.mgz is not enough? Best, Han. On Wed, May 19, 2010 at 8:20 PM, Bruce Fischl wrote: > Hi Han, > it depends on the size of the resection/stroke. For

Re: [Freesurfer] Freesurfer for stroke subjects?

2010-05-19 Thread Bruce Fischl
probably not as you won't be able to reconstruct the correct topology if the defect is big enough Bruce On Wed, 19 May 2010, Cheol Han wrote: > Hi Bruce. > > Thanks for your answer. What should I do for a larger one like removal of > almost all of temporal lobe or prefrontal cortex. Modifying wm

Re: [Freesurfer] OASIS database difference aseg volumetry...

2010-05-19 Thread Bruce Fischl
Hi Gonzalo, we analyzed the OASIS data a long time ago, so many things have changed. cheers Bruce On Tue, 18 May 2010, Gonzalo Rojas Costa wrote: > Hi: > > I downloaded a dataset image from OASIS (OAS1_0068_MR1)... I reprocessed > with Freesurfer v4.5.0 (recon-all -legacy command) But, th

[Freesurfer] Changing roi label display color in tkmedit

2010-05-19 Thread Lena Palaniyappan
I want to show a group of 5 labels ­ ach with a different color in tkmedit (Orig.mgz) display ­ can I manipulate the colors of these lables ­ I am able to do this in tksurfer: not tkmedit. Am I missing something? Cheers Lena ___ Lena Palaniyappan

Re: [Freesurfer] Changing roi label display color in tkmedit

2010-05-19 Thread Bruce Fischl
Hi Lena, I'm not sure you can do this in tkmedit. You might try freeview instead. cheers Bruce On Wed, 19 May 2010, Lena Palaniyappan wrote: I want to show a group of 5 labels ­ ach with a different color in tkmedit (Orig.mgz) display ­ can I manipulate the colors of these lables ­ I am able

Re: [Freesurfer] Changing roi label display color in tkmedit

2010-05-19 Thread Lena Palaniyappan
I don't seem to get freeview on commandline - where can I download this? Thanks LKP On 19/05/2010 17:47, "Bruce Fischl" wrote: > Hi Lena, > > I'm not sure you can do this in tkmedit. You might try freeview instead. > > cheers > Bruce > On > Wed, 19 May 2010, Lena Palaniyappan wrote: > >> I

Re: [Freesurfer] Changing roi label display color in tkmedit

2010-05-19 Thread Bruce Fischl
it should be in our current distribution On Wed, 19 May 2010, Lena Palaniyappan wrote: I don't seem to get freeview on commandline - where can I download this? Thanks LKP On 19/05/2010 17:47, "Bruce Fischl" wrote: Hi Lena, I'm not sure you can do this in tkmedit. You might try freeview i

Re: [Freesurfer] Changing roi label display color in tkmedit

2010-05-19 Thread Krish Subramaniam
Hi Lena Do you have a Mac? In that case, I can send you an experimental build of freeview if your OS is 10.5.x ( Leopard ). It doesn't work on 10.6.x ( Snow Leopard ) which we are working on. Best Krish On May 19, 2010, at 3:37 PM, Bruce Fischl wrote: > it should be in our current distribut

[Freesurfer] Number of Time points

2010-05-19 Thread Tadimeti, Usha
Hi , I am basically trying to get an output with 300 lines and the events "one", "two"..."seven" and "null" to be distributed in those 300 points. But when I get the output, I get more than 300 lines and the number of "null" lines in the output is variable(i.e., the 2 output files ex-001.par a

[Freesurfer] No green line in tkregister2...

2010-05-19 Thread Gonzalo Rojas Costa
Hi: No green line appears in tkregister2 over the fuzzy volume... Why ?... Sincerely, Gonzalo Rojas Costa ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information

Re: [Freesurfer] No green line in tkregister2...

2010-05-19 Thread Bruce Fischl
what was your command line? On Wed, 19 May 2010, Gonzalo Rojas Costa wrote: > Hi: > > No green line appears in tkregister2 over the fuzzy volume... Why ?... > > Sincerely, > > > > Gonzalo Rojas Costa > > > ___ > Freesurfer mailing list > Freesurfer@nmr

Re: [Freesurfer] No green line in tkregister2...

2010-05-19 Thread Gonzalo Rojas Costa
Hi Bruce: It is "tkregister2 --mgz --s patient --fstal" Sincerely, Gonzalo Rojas Costa Bruce Fischl escribió: > what was your command line? > On Wed, 19 May 2010, Gonzalo Rojas Costa wrote: > >> Hi: >> >> No green line appears in tkregister2 over the fuzzy volume... Why ?... >> >> Since

Re: [Freesurfer] No green line in tkregister2...

2010-05-19 Thread Douglas N Greve
Add --surf Gonzalo Rojas Costa wrote: > Hi Bruce: > > It is "tkregister2 --mgz --s patient --fstal" > > Sincerely, > > > Gonzalo Rojas Costa > > > Bruce Fischl escribió: > >> what was your command line? >> On Wed, 19 May 2010, Gonzalo Rojas Costa wrote: >> >> >>> Hi: >>> >>> No green