After running the mri_label2label and mris_label2annot a new rh.BA.annot file was created (I had to remove the old one since it doesn't overwritte) but when running
[user@host87 Freesurfer]$ mris_anatomical_stats -mgz -f ../stats/rh.BA.stats -b -a ./rh.BA.annot -c ./BA.ctab SUBJECT rh white
It says that can't read annotation file:
INFO: assuming MGZ format for volumes. computing statistics for each annotation in ./rh.BA.annot. reading volume /home/user/visao/Freesurfer//SUBJECT/mri/wm.mgz... reading input surface /home/user/visao/Freesurfer//SUBJECT/surf/rh.white... reading input pial surface /home/user/visao/Freesurfer//SUBJECT/surf/rh.pial... reading input white surface /home/user/visao/Freesurfer//SUBJECT/surf/rh.white... could not read annot file ./rh.BA.annot No such file or directory mris_anatomical_stats: could not read annotation file ./rh.BA.annot No such file or directory
I only tried with rh, but I don't think that's a problem is it?
Thank you!
Andreia
Quoting Anastasia Yendiki ayendiki@nmr.mgh.harvard.edu:
In the "BA label" section there are:
- Several mri_label2label commands that map each label from
fsaverage space to your indidvidual's space
- One mris_label2annot command that combines the mapped label into
an annotation file.
- One mris_anatomical_stats command that gets stats for that annotation.
For each of these commands you can run them with --help to see what the inputs and outputs are, or look them up on the wiki.
On Tue, 26 Mar 2013, _andreia_@sapo.pt wrote:
Nevermind the last email... If I change the output (wich is the second place where BAxx.label appears, right?) file name and give the subjs id this won't be a problem... Anyway, what are these files for? Will I need to use them somehow?
Thanks Andreia
Quoting _andreia_@sapo.pt:
Addicionaly, this approach is creating an individual file for each BAxxx.thresh.label (see atchment) and I think that if I run these commands for another subject these outputs will be replaced since the name of the files has no info relating to the subject who it belongs.
I'm kind of lost here...
Quoting _andreia_@sapo.pt:
Hi,
I run the command for each BA labels of the right hemisphere and then run:
[user@host87 Freesurfer]$ mris_anatomical_stats -mgz -f ../stats/rh.BA.thresh.stats -b -a ./rh.BA.annot -c ./BA.ctab SUBJECT rh white
Which resulted in:
INFO: assuming MGZ format for volumes. computing statistics for each annotation in ./rh.BA.annot. reading volume /home/user/visao/Freesurfer//ANTONIOVELOSO_2/mri/wm.mgz... reading input surface /home/user/visao/Freesurfer//ANTONIOVELOSO_2/surf/rh.white... reading input pial surface /home/user/visao/Freesurfer//ANTONIOVELOSO_2/surf/rh.pial... reading input white surface /home/user/visao/Freesurfer//ANTONIOVELOSO_2/surf/rh.white... could not read annot file ./rh.BA.annot No such file or directory mris_anatomical_stats: could not read annotation file ./rh.BA.annot No such file or directory
What is wrong? Is there a way to run everything that is needed to get the BA stats at once using the BAxxx.thresh.label?
Thank you, Andreia
Quoting Anastasia Yendiki ayendiki@nmr.mgh.harvard.edu:
If you replace *every* occurence of BAxxx.label with BAxxx.thresh.label, this will keep things simple and you won't have to worry about which one is input and which one is output.
Run *all* the commands from the "BA labels" section, all the way to the end of that section, this will get you to the stats.
On Mon, 25 Mar 2013, _andreia_@sapo.pt wrote:
Ok. So the first is the input and the second is the output, correct? So I'll have a different file for each out put? Is it possible to have a table with the different measures after the threshold?
Thank you very much and I apologize for the naive questions...
Andreia
Quoting Anastasia Yendiki ayendiki@nmr.mgh.harvard.edu:
> What you call the output label is up to you. What you call the > input label is more important - it has to be a file that > actually exists. > > On Mon, 25 Mar 2013, _andreia_@sapo.pt wrote: > >> Ah ok! Sorry... In both places? >>>> Quoting Anastasia Yendiki ayendiki@nmr.mgh.harvard.edu: >>>> It's .thresh.label, not .threshold.label. >>>>> On Mon, 25 Mar 2013, _andreia_@sapo.pt wrote: >>>>>>> Hi Anastasia! >>>>> The command in the recon-all.log is this one: >>>>> mri_label2label --srcsubject fsaverage --srclabel > > > > >>>>> /home/user/visao/Freesurfer/fsaverage/label/rh.BA1.label >>>> --trgsubject SUSANAFERREIRA --trglabel ./rh.BA1.label --hemi >>>> rh > > > > --regmethod surface >>>>> And I tried substituing BAxxx.label by BAxxx.thresh.label >>>> like > > > > this: >>>>> mri_label2label --srcsubject fsaverage --srclabel >>>> /home/user/visao/Freesurfer/fsaverage/label/lh.BA1.threshold.label > >>>>>>> --trgsubject SUSANAFERREIRA --trglabel >>>> ./lh.BA1.thresolh.label --hemi lh --regmethod surface >>>>> gave an error : >>>>> SUBJECTS_DIR /home/user/visao/Freesurfer/ >>>> FREESURFER_HOME /usr/local/freesurfer >>>> Loading source label. >>>> No such file or directory >>>> mri_label2label: could not open label file > > > > >>>> /home/user/visao/Freesurfer/fsaverage/label/lh.BA1.threshold.label >>>> Illegal seek >>>> ERROR reading > > > > >>>> /home/user/visao/Freesurfer/fsaverage/label/lh.BA1.threshold.label >>>>> Thus, I substitued only in the second BAxxx.label and it >>>> worked. I > > > > > thought that was it, but then the values >>>> were the same. I'm sorry, I'm not sure what is missing. >>>>> Thank you! >>>>> Andreia >>>>>>>>>>>>>> Quoting Anastasia Yendiki > > > > > > > >>>>>>>>>> ayendiki@nmr.mgh.harvard.edu: >>>>>> Hi Andreia - What you're rerunning is using BAxxx.label >>>> instead > > > > > of >>>>> BAxxx.thresh.label. So of course the results will be the >>>> same as > > > > before >>>>> you copied over the BAxxx.thresh.label files, b/c these >>>> new files > > > > > > aren't >>>>> being used in 5.0. >>>>>>> You'll need to find the "BA labels" section in >>>> recon-all.log > > > > > > and rerun >>>>> those commands yourself, changing every BAxxx.label to > > >>>>>>>> BAxxx.thresh.label. >>>>>>> Hope this helps, >>>>> a.y >>>>>>> On Mon, 25 Mar 2013, _andreia_@sapo.pt wrote: >>>>>>>> Hello list! >>>>>>>>> Any suggestions on what I may be doing wrong? >>>>>>>>> Thanks! >>>>>> Andreia >>>>>>>>>>>>>>> ----- Mensagem encaminhada de > > > > >>>>>>>>>>>>>> _andreia_@sapo.pt ----- >>>>>> Data: Sun, 24 Mar 2013 19:11:13 +0000 >>>>>> De: _andreia_@sapo.pt >>>>>> Assunto: Re: [Freesurfer] Brodmann area thickness, >>>> surface area > > > > > and > > > volume >>>>>> Para: Anastasia Yendiki >>>> ayendiki@nmr.mgh.harvard.edu, > > > > > > > > freesurfer >>>>>> freesurfer@nmr.mgh.harvard.edu >>>>>> Cc: Bruce Fischl fischl@nmr.mgh.harvard.edu >>>>>>>>> Hi all, >>>>>>>>> I want to study Brodmann Areas cortical thickness, >>>> surface > > > > > > > > area and >>>>>> volume. I've added the 5.2 BAxxx.threshold.label to my >>>> 5.0 > > > > > fsaverage >>>>>> and run the recon-all BA labels command. Now I run > > > >>>>>> aparcstats2table >>>>>> and get a table with the values but they are the same as before >>>>>> running the BAxxx.threshold.label. >>>>>>>>> So, everything is working but the values haven't >>>> changed. > > > > > > > > Am I > > > missing >>>>>> something? Do I need to run any other command so to the >>>>>>>>> threshold > > > have >>>>>> effect? >>>>>>>>> Andreia >>>>>>>>>>>> Quoting Anastasia Yendiki > > > > > > > > > >>>>>> ayendiki@nmr.mgh.harvard.edu: >>>>>>>>>> Sounds like centos4 is probably the safest bet >>>> for you, > > > > > > > > > although > > > > you >>>>>>> should ask the list this question. >>>>>>>>>>> Sorry, I don't know what values you want to >>>> get in a > > > > > > > > > > table. >>>>>>>>>>> On Sat, 23 Mar 2013, _andreia_@sapo.pt wrote: >>>>>>>>>>>> Ah ok! Anyway, I'm thinking of working with >>>> 5.2, > > > > > > > > > > > should I > > > > > download >>>>>>>> the version for centOS 4 then? >>>>>>>>>>>>> After running the new BAxxx.thresh.label >>>> files how > > > > > > > > > > > > can I get the >>>>>>>> values in a table? >>>>>>>>>>>>>>>>>>>>>>>>>>>> Quoting >>>> Anastasia > > > > > > > > > > > > > > > > > > > > > > > > > > >>>>> Yendiki > > > > > > > > > > > > > > > > > > > > > > > > > >>>>>> ayendiki@nmr.mgh.harvard.edu: >>>>>>>>>>>>>> It doesn't matter. You just need to use >>>> those > > > > > > > > > > > > > .label files from >>>>>>>>> the fsaverage directory in the 5.2 distritbution. >>>> You > > > > > > > > don't > > > > > > need >>>>>>>>> to run any of the executables from the 5.2 distribution. >>>>>>>>>>>>>>> On Sat, 23 Mar 2013, _andreia_@sapo.pt wrote: >>>>>>>>>>>>>>>> I'm using Centos5, which file should >>>> I > > > > > > > > > > > > > > > download? The one for >>>>>>>>>> CentOS 6 or > 4? >>>>>>>>>>>> Quoting Anastasia Yendiki > > > > > > > > > >>>>>> ayendiki@nmr.mgh.harvard.edu: >>>>>>>>>>>> You'll need to go to the section of >>>> recon-all.log > > > > > > > > > > > under > > > > > > > > > >>>> the >>>>>>>>>>> heading "BA > > labels". You'll need to rerun >>>> the > > > > > > > > > > commands > > > > > > > > in >>>>>>>>>>> that section, but instead > > of using the >>>> BAxxx.label > > > > > > > > > > > > > > > > > > files, us >>>>>>>>>>> the BAxxx.thresh.label files, which > > you'll >>>> find in > > > > > > > > > > the >>>>>>>>>>> fsaverage subject dir in the 5.2 distribution. >>>>>>>>>>>>> On Sat, 23 Mar 2013, _andreia_@sapo.pt wrote: >>>>>>>>>>>>>> Hello Anastasia, >>>>>>>>>>>>> How should I proceed to get the >>>> different BAs > > > > > > > > > > > > > > > > > > > > > > >>>> measures >>>>>>>>>>> output with > > > > FS > 5.0? >>>>>>>>>>>>> Thank you very much! >>>>>>>>>>>>> Andreia >>>>>>>>>>>>>> Quoting Anastasia Yendiki > > > > > > >>>>>>>>>>>>>>>>>>>>>> >>>> ayendiki@nmr.mgh.harvard.edu: >>>>>>>>>>>>>> The thresholded labels are in the 5.2 >>>> version > > > > > > > > > > > > > of >>>>>>>>>>> fsaverage > > > > > under: >>>>>>>>>>>>> > > > > > > > > > > > > > > > > > > > > >>>>>> $FREESURFER_HOME/subjects/fsaverage/label/*.thresh.label >>>>>>>>>>>>>>> On Sat, 23 Mar 2013, Bruce Fischl wrote: >>>>>>>>>>>>>>>> Anastasia? >>>>>>>>>>>>>> On Sat, 23 Mar 2013, _andreia_@sapo.pt wrote: >>>>>>>>>>>>>>>> Ok, that was my guess... I am >>>> running > > > > > > > > > > > > > > > against > > > > > > > >>>>>>>>>> a >>>>>>>>>>> deadline, > > > > > > > any > > > > > news on >>>>>>>>>>>>>>> automatically computing the correct >>>>>>>>>>>>>>>>>> threshold > > > > > > > > > > > >>>>> script? >>>>>>>>>>> Will I > > > > > > be > > > > able to >>>>>>>>>>>>>>> use it in 5.0? >>>>>>>>>>>>>>>>> Thanks you! >>>>>>>>>>>>>>>>> Andreia >>>>>>>>>>>>>>>>>>> Quoting Bruce Fischl > > > >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> >>>>>>>>>>>>>>>>>>>>>>> >>>> fischl@nmr.mgh.harvard.edu: >>>>>>>>>>>>>>>>>> yes. Surface area will be >>>> the > > > > > > > > > > > > > > > > > affected > > > > > > > >>>>>>>>>>>>>>>>>>>>>>>>>>>>> much >>>>>>>>>>> more than > > > > > > > > > > > > > > > > >>>>>>>>>>>>>> thickness > > > > > > > > (and > >>>>>>>>>>>>>> volume of > > > > > > > > > course >>>> scales > > > > > > > > > > > > > with > > > > > > > > > > > >>>> area) >>>>>>>>>>>>>>>>> On Fri, 22 Mar 2013, > > > > >>>>>>>>>>>>>>>> _andreia_@sapo.pt > > > > > > > > > >>>>>>>>>>>>>>>>>>>>>>>>> wrote: >>>>>>>>>>>>>>>>>> Hi Bruce, >>>>>>>>>>>>>>>>>>> Thank you for the quick response! >>>>>>>>>>>>>>>>>>> In the meanwhile, does >>>> that also > > > > > > > > > > > > > > > > > > apply > > > > >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> to >>>>>>>>>>> cortical > > > > > > > > > > > > > > > > >>>>>> > > > > > > > > > > > cortical > > > > > > > > > > > >>>>>>>>>> cortical > > > > > > > > > > > cortical > > > > > >>>>>>>>>>>>>>>>>>>>>>>>>>>> cortical > > >>>>>>>>>>>> thickness > >>>>>>>>>>>>>>>> and > > > > > > > > > > > > volume? >>>>>>>>>>>>>>>>>>> Thank you! >>>>>>>>>>>>>>>>>>> Andreia >>>>>>>>>>>>>>>>>>> Quoting Bruce Fischl > > >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> >>>>>>>>>>>>>>>>>>>>>>>> >>>> fischl@nmr.mgh.harvard.edu: >>>>>>>>>>>>>>>>>>>> Hi Andreia >>>>>>>>>>>>>>>>>>>>> the issue is that the >>>> BA > > > > > > > > > > > > > > > > > > > > labels > > > > > >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> >>>>>>> contain >>>>>>>>>>> every > > > > > > > > > > > > point > > > >>>>>>>>>>>>>>>>>>>>> >>>>>>>>>>> that > > > > > > > > > > > > > > > > > > > >>>> > has > > > > > > > > > > any > > > > > > > > > > > >>>>>>>>>>> non-zero >>>>>>>>>>>>>>>>>> probability (no matter how >>>> small!) > > > > > > > > > > > > > > > > > of > > > > > > > > >>>>>>>>>>> being > > > > > > > > > > > > > > > > > in >>>>>>>>>>> that > > > > > > > > > label. > > > > > > >>>>> So > > > > > > > > > > > > > > > > > > > > > > > >>>>>>>>>>> the > > > > > > > > > > > > total >>>>>>>>>>>>>>>>>> label area is almost >>>> certainly > > > > > > > > > > > > > > > > > always > > > > > >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> bigger >>>>>>>>>>> than the > > > > > > > > > > > > > > > > >>>> actual > > > > > > > > > > > > > > > > > > > > > > > >>>>>>>>>>> BA. > > > > > > > > > > > > Anastasia >>>>>>>>>>>>>>>>>> has some scripts for >>>> automatically > > > > > > > > > > > > > > > > > > > > > > > >>>>>>>>>>>>> computing >>>>>>>>>>> the > > > > > > > > > correct > > > > > > >>>>>> > > > > > > > > > > > > > > > > > > > > > > >>>>>>>>>>> threshold, > > > > > > > > > > > > and I >>>>>>>>>>>>>>>>>> believe she and Nick >>>> integrated > > > > > > > > > > > > > > > > > them > > > > > >>>>>>>>>>>>>> into > > > > > > > > > > > > > > > > > 5.2 >>>>>>>>>>> so that > > > > > > > > > the > > > > > > >>>>> > > > > > > > > > > stats > > > > > > > > > > > > >>>>>>>>>>>> are >>>>>>>>>>>>>>>>>> computed both thresholded >>>> and > > > > > > > > > > > > > > > > > > > > > > > > > > > > >>>>>>>> unthresholded, > >>>>>>>>>>>>>>>>>>> hopefully > > > > > > > >>>> they > > > > > > > > > > > > > > > > > > can > > > > > > > >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> >>>>>>>>>>>> >>>>>>>>>>>> comment. >>>>>>>>>>>>>>>>>> Bruce >>>>>>>>>>>>>>>>>>>>>>>>>>> On Fri, >>>> 22 Mar > > > > > > > > > > > > > > > > > > > > > > > > > > >>>> 2013, > > > > > > > > > > > > > > > > > > > > > > > > > > > > >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> >>>>>>>>>>>>>>>>>>>>>>>>>> >>>>>>>>>>>>>>>>>>>>>>>>> _andreia_@sapo.pt >>>>>>>>>>>>>>>>>> wrote: >>>>>>>>>>>>>>>>>>>>>> Hi all, >>>>>>>>>>>>>>>>>>>>>>> I'm using FS 5.0 >>>> and some > > > > > > > > > > > > > > > > > > > > > > time > >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> >>>>>>>>>>>>>> ago I >>>>>>>>>>> was > > > > > > > > > > > > > > told by > >>>>>>>>>>>>>>>>>> was > > > > > > > > > > > > > > >>>>>>>>>>>>>>>>>>>>>>>> was > > > > > > > > > >>>>>>>>> was > > > > > > > > > > > > > > > > > > > was > > >>>>>>>>>>>>>>>>>>>>>>>> >>>>>>>>>>>>> >>>>>>>>>>>>>>>>>> >>>>>> >>>>>>>>>>> Bruce that I had > > > > > > > > > > > > > > > >>>>>>>>>>>>>>>>>>> > > > > > > > > > > >>>>>>>>>>>>>>>>>>> to >>>>>>>>>>>>>>>>>>> threshold the BA in order >>>> to have > > > > > > > > > > > > > > > > > > an >>>>>>>>>>> approximate > > > > > > > > > > area > > >>>>>>>>>>>>>>>>>> approximate > > > > > > > > > > >>>>>> > > > > > > > > > > > > > > > > > > approximate > > > > >>>>>>>>>> approximate > > > > > > > > > > > > > > > >>>> approximate > > > > > > > > > > > > > > > when >>>>>>>>>>>>>>>>>> >>>>>>>>>>>>> overlaying >>>>>>>>>>>>>>>>>>> in the inflated surface. >>>> To get > > > > > > > > > > > > > > > > > > > > > > > > > > > >>>>>>>>>>> surface > > > > > > > > > > > > > > > > > > area >>>>>>>>>>> values > > > > > > > > > > I > > > > > > >>>>>> > > > > > > > > > > values > > > > > > > > > > also > >>>>>>>>>>>>>>>>>>>>>> values > > > > > > > > > >>>>> values > > > > > > > > > > > > > > > > > > > > values > > >>>>>>>>>>>>>>> >>>>>>>>>>>>> need to > > > > > > > > > > > > > > use >>>>>>>>>>>>>>>>>>> the label_area and put a >>>>>>>>>>>>>>>>>>>>>> threshold >>>>>>>>>>>>>>>>>>> having the possibility to >>>> choose > > > > > > > > > > > > > > > > > > the > > > > > > > >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> surface >>>>>>>>>>> that I > > > > > > > > > > > > > > > > > >>>>> > > > > > > > > > > want, > > > > > > > > > > > > >>>>>>>>>>>>> either > > > > > > > > > > > > > > white >>>>>>>>>>>>>>>>>>> or pial. >>>>>>>>>>>>>>>>>>>>>>> But I can also >>>> get the BA > > > > > > > > > > > > > > > > > > > > > > > > > >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> >>>>>>>>>>>> stats in a >>>>>>>>>>> table > > > > > > > > > > > > > > for > > >>>>>>>>>>>>>>>>>> table > > > > > > > > > > > > > > >>>>>>>>>>>>>>>>>>>>>>>> table > > > > > > > >>>>>>>>>>> table > > > > > > > > > > > > > > > > > table >>>>>>>>>>>>>>>>>>>>>>>>>>>> >>>>>>>>>>>> all > > > > > > > > > > > > > > > > > > >>>> > > > > > > > > > > > > > > > > > > > > > > > > > > >>>>>>>>>>> subjects and > > > > > > > > > > > > > > > > > >>>>>>>>>>>>>>>>>>> > > > > > > > > > > >>>>>>>>>>>>>>>>> areas >>>>>>>>>>>>>>>>>>> using either > > > > > > >>>>>>>>>>>>>>>> mris_anatomical_stats (on > > > > > >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> each >>>>>>>>>>> label) > > > > > > > > > > or > > > > > > >>>>>> > > > > > > > > > > usinga > > > > > > > > > > >>>>>>>>>>>>>>> >>>>>>>>>>>>>> script by >>>>>>>>>>>>>>>>>>> Jamaan to get the table >>>> (since I > > > > > > > > > > > > > > > > > > > > > > > > > > >>>>>>>>>>>>>>>>>>>>>>>>>>>>>> already >>>>>>>>>>> have the > > > > > > > > > > > > > > > > > >>>>> > > > > > > > > > > > > > > > > > > ?.BA.stats > >>>>>>>>>>>>>>>> >>>>>>>>>>>>>> files), >>>>>>>>>>>>>>>>>>> right? >>>>>>>>>>>>>>>>>>>>>>> My question is, >>>> which is > > > > > > > > > > > > > > > > > > > > > > the >>>>>>>>>>> better/correct > > > > > > > > > > > > > > >>>> way > > > > > > > > > > > > > > > > > > > > > > > > > >>>>>>>>>>>>>>>> to > > > > > > > > > > > > > > > >>>>>>>>>>>>>>>>>>>>>>> > > > > > > > > > > >>>>>>> > > > >>>>>>>>>>>>> get the > > > > > > > > > > > > > > > > >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> >>>>>>>>>>>> >>>> thickness >>>>>>>>>>>>>>>>>>> and surface area values >>>> of the BA > > > > > > > > > > > > > > > > > > to > > > > > > >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> export >>>>>>>>>>> for > > > > > > > > > > > > > > > > > > >>>> > > > > > > > > > > for > > > > > > > > > > > > >>>> statistical > > > > > > > > > > > > > > > > > for > > > > > > >>>>>>>>>>> for > > > > > > > > > > > > > > > > > > > > >>>> for > > > > > > > > > > > > > > > > > >>>>>>>>>>>>>>> >>>>>>>>>>>>> analysis >>>>>>>>>>>>>>>>>>> since there are the >>>> thresolds > > > > > > > > > > > > > > > > > > issue. >>>>>>>>>>>>>>>>>>>>>>> I want to study >>>> mainly > > > > > > > > > > > > > > > > > > > > > > > > > > > >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> >>>>>>>>>> cortical >>>>>>>>>>> thickness > > > > > > > > > > > > > > and >>>>>>>>>>>>>>>>>> thickness > > > > > > > > > > > > >>>>>>>>>>>>>>>>>>>>>>>> thickness > > > > > >>>>>>>>>>>>>>> thickness > > > > > > > > > > > >>>> thickness > > > > > > > > > > > > > > > > > > > > > > > > > >>>>>>>>>>> thickness > > > > > > > > > > > > > > > > > > >>>>>>>> >>>>>>>>>>>>>> surface > > > > > > > > > > > > > > >>>>>> > > > > > > > > > > > > > > > > > > > > > > > > > > >>>>>>>> >>>>>>>>>>>>> area but > > > > > > > > > > > > > > > >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> >>>> > >>>>>>>>>>>>>>>>>> also >>>>>>>>>>>>>>>>>>> look also at the volume (which is >>>>>>>>>>> surface-based, > > > > > > > > > > thus >>>>>>>>>>>>>>>>>>> thickness*surface are >>>> will not be > > > > > > > > > > > > > > > > > > = > > > > > >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> >>>> volume >>>>>>>>>>> since > > > > > > > > > > they > > > > > >>>>>>> > > > > > > > > > > since > > > > > > > > > > are > >>>>>>>>>>> since > > > > > > > > > > > since > > > > > > > >>>>>>>>>>>>>>>> an > > >>>>>>>>>>>>>>> >>>>>>>>>>>>> > average >>>>>>>>>>>>>>>>>>> from each label, right?). >>>>>>>>>>>>>>>>>>>>>>> I' not sure of >>>> which > > > > > > > > > > > > > > > > > > > > > > approach > >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> >>>>>>>>>>>>>> to >>>>>>>>>>> follow > > > > > > > > > > > > > > now... >>>>>>>>>>>>>>>>>> follow > > > > > > > > > > > > > >>>>>>>>>>>>>>>>>>>>>>>>> follow > > > > > > >>>>>>>>>>>> follow > > > > > > > > > > > > > > > > >>>> follow > > > > > > > > > > > > > > > > > > > > > > > > > > > >>>>>>>>>>> follow > > > > > > > > > > > > > > > >>>>>>>>>>>>>> Does > > > > > > > > > > > > > > > >>>>> > > > > > > > > > > > > > > > > > > > > > > > > > > > >>>>>>>> >>>>>>>>>>>> it depend on > > > > > > > > > > > > > > >>>>>>>>>>>>>>>>>>>>> > > > > > > > > > > > >>>>>>>>>>>>>>>>>>> the >>>>>>>>>>>>>>>>>>> measure I'll be using? >>>>>>>>>>>>>>>>>>>>>>> Thank you! >>>>>>>>>>>>>>>>>>>>>>> Andreia >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> >>>> _______________________________________________ >>>>>>>>>>>>>>>>>>> Freesurfer mailing list >>>>>>>>>>>>>>>>>>> Freesurfer@nmr.mgh.harvard.edu >>>>>>>>>>>>>>>>>>>>>>>>>>> >>>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> >>>>>>> _______________________________________________ >>>>>>>>>>>>>>>>>> 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 > > > > >>>>>>> > > > > > > > > > > the > > > > > > > > > sent > > >>>>>>>>>> the > > > > > > > > > > > > > > the > > > > > > > >>>>>>>>>>>>>> >>>>>>>>>>>>> to > > > > > > > > > > > > you in error >>>>>>>>>>>>>>>>>> but does not contain >>>> patient > > > > > > > > > > > > > > > > > > > > > > > > > > >>>>>>>>>> information, >>>>>>>>>>> please > > > > > > > > > contact > > > > >>>>>>> > > > > > > > > > > please > > > > > > > > > the > >>>>>>>>>>> please > > > > > > > > > > > please > > > > > > >>>>>>>>>>>>>>>>>> >>>>>>>>>>>>> sender > > > > > > > > > > > > and properly >>>>>>>>>>>>>>>>>> dispose of the e-mail. >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> >>>>>>>>>>>>>>>>>>>> ----- > > > > > > > > > > > >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> >>>>>>>>>>>>>>>>>> Fim > > > > > > > > > > > > > > >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> >>>>>>>>>>>>>>> de > > > > > > > > > > > > > > > > > > >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> >>>>>>>>>>> mensagem > > > > > > > > > > > > > > > > > > > >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> >>>>>>>>>> reenviada > > > > > > > > > > > > > > > > > > > >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> >>>>>>>>>> ----- >>>>>>>>> _______________________________________________ >>>>>> Freesurfer mailing list >>>>>> Freesurfer@nmr.mgh.harvard.edu >>>>>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>>>>>>>>>>>>> _______________________________________________ >>>>> Freesurfer mailing list >>>>> Freesurfer@nmr.mgh.harvard.edu >>>>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>>>>>>>>>>
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