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 _andre...@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 _andre...@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 <ayend...@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, _andre...@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 <ayend...@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, _andre...@sapo.pt wrote: >>>>> >>>>>> Ah ok! Sorry... In both places? >>>>>>>> Quoting Anastasia Yendiki <ayend...@nmr.mgh.harvard.edu>: >>>>>>>> It's .thresh.label, not .threshold.label. >>>>>>>> > On Mon, 25 Mar 2013, _andre...@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 > > > > > > > >>>>>>>> > > > > > > <ayend...@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, _andre...@sapo.pt wrote: >>>>>>>> > > > > Hello list! >>>>>>>> > > > > > Any suggestions on what I may be doing wrong? >>>>>>>> > > > > > Thanks! >>>>>>>> > > Andreia >>>>>>>> > > > > > > > > > > > ----- Mensagem encaminhada de > > > > >>>>>>>> > > > > > > > > > > _andre...@sapo.pt ----- >>>>>>>> > > Data: Sun, 24 Mar 2013 19:11:13 +0000 >>>>>>>> > > De: _andre...@sapo.pt >>>>>>>> > > Assunto: Re: [Freesurfer] Brodmann area thickness, >>>>>>>> surface area > > > > > and > > > volume >>>>>>>> > > Para: Anastasia Yendiki >>>>>>>> <ayend...@nmr.mgh.harvard.edu>, > > > > > > > > freesurfer >>>>>>>> > > <freesurfer@nmr.mgh.harvard.edu> >>>>>>>> > > Cc: Bruce Fischl <fis...@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 > > > > > > > > > >>>>>>>> > > <ayend...@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, _andre...@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 > > > > > > > > > > > > > > > > > > > > > > > > > >>>>>>>> > > <ayend...@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, _andre...@sapo.pt wrote: >>>>>>>> > > > > > > > > > > > > I'm using Centos5, which file should >>>>>>>> I > > > > > > > > > > > > > > > download? The one for >>>>>>>> > > > > > > CentOS 6 or > 4? >>>>>>>> > > > > > > > > Quoting Anastasia Yendiki > > > > > > > > > >>>>>>>> > > <ayend...@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, _andre...@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 > > > > > > >>>>>>>> > > > > > > > > > > > > > > > > > > >>>>>>>> <ayend...@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, _andre...@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 > > > >>>>>>>> > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > >>>>>>>> > > > > > > > > > > > > > > > > > > > >>>>>>>> <fis...@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, > > > > >>>>>>>> > > > > > > > > > > > > _andre...@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 > > >>>>>>>> > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > >>>>>>>> > > > > > > > > > > > > > > > > > > > > >>>>>>>> <fis...@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, > > > > > > > > > > > > > > > > > > > > > > > > > > > > >>>>>>>> > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > >>>>>>>> > > > > > > > > > > > > > > > > > > > > > > >>>>>>>> > > > > > > > > > > > > > > > > > > > > > _andre...@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 >>>>>>>> > > > > > > > >>>> >>>> >>>> >>>> >>>> _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
