Hi Anupa, In addition to the Desikan and Destrieux parcellations, FreeSurfer 5.2 also include other cortical parcellations (https://surfer.nmr.mgh.harvard.edu/fswiki/ReleaseNotes).
In particular, the resting-state parcellation or Mindboggle atlas might be relevant to you if you are interested in the frontal cortex. Cheers, Thomas On Mon, Mar 25, 2013 at 11:31 PM, Laura M. Tully <tully.la...@googlemail.com> wrote: > it sounds like you want a different parcellation of the lateral prefrontal > cortex than what is offered by the default atlas (aparc, AKA the desikan > atlas) - I suggest you load in ?h.aparc.a2009s.annot (aka the destrieux > atlas) as your annotation in tksurfer and select the annotations of the PFC > that you want from there and save as labels. The aparc.a2009 annotation > offers a more fine grained parcellation of the PFC - e.g. you can get the > DLPFC by merging the middle frontal gyrus & middle frontal sulcus > parcellations. > > > On Mon, Mar 25, 2013 at 3:19 AM, Anupa AV <av.an...@yahoo.com> wrote: >> >> Dear Laura, >> Thank you so much. >> It worked well. >> Do you know how to make cuts on the merged label, for eg. if I need to >> seperate DLPFC from premotor cortex. >> >> >> ________________________________ >> From: Laura M. Tully <tully.la...@googlemail.com> >> To: Anupa AV <av.an...@yahoo.com> >> Cc: "freesurfer@nmr.mgh.harvard.edu" <freesurfer@nmr.mgh.harvard.edu> >> Sent: Sunday, March 24, 2013 12:20 AM >> Subject: Re: [Freesurfer] Merging PArcellation labels >> >> First save each parcellation that you want as its own separate label by >> selecting it in tksurfer (simply click on it with your mouse and its >> boarder will be highlighted in yellow) and then file -> label -> save >> selected label... Then you can merge these separate labels into one label >> at the command line using mri_mergelabels -i [labelfile1] -i [labelfile2] -o >> [newlabelfile.label] >> >> If doing glms from the command line you can then feed mri_glmfit the label >> with the --label option. This will conduct the glm in the region specified >> in the label only (i.e. an roi analysis) >> >> There is also a quick way to turn all of the desikan parcellations into >> individual label files at the command line using mri_annotation2label I >> think, but I can't remember precisely. This is a lot faster than using >> tksurfer as it simply dumps all the individual parcellations into a >> specified output directory. But I don't know if you can do it with the >> Destrieux atlas parcellations (if you were interested in doing that.) >> >> Laura. >> >> >> >> >> >> On Sat, Mar 23, 2013 at 2:36 AM, Anupa AV <av.an...@yahoo.com> wrote: >> >> Dear All, >> >> Can anyone tell me how to merge the parcellation labels using tksurfer.? >> For eg. How can I merge, Superior frontal gyrus, middle frontal gyrus and >> caudal middle frontal gyrus. >> >> _______________________________________________ >> 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. >> >> >> >> >> -- >> -- >> Laura M. Tully, MA >> Social Neuroscience & Psychopathology, Harvard University >> Center for the Assessment and Prevention of Prodromal States, UCLA Semel >> Institute of Neuroscience >> ltu...@mednet.ucla.edu >> ltu...@fas.harvard.edu >> 310-267-0170 >> -- >> My musings as a young clinical scientist: >> http://theclinicalbrain.blogspot.com/ >> Follow me on Twitter: @tully_laura >> >> _______________________________________________ >> 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. >> >> > > > > -- > -- > Laura M. Tully, MA > Social Neuroscience & Psychopathology, Harvard University > Center for the Assessment and Prevention of Prodromal States, UCLA Semel > Institute of Neuroscience > ltu...@mednet.ucla.edu > ltu...@fas.harvard.edu > 310-267-0170 > -- > My musings as a young clinical scientist: > http://theclinicalbrain.blogspot.com/ > Follow me on Twitter: @tully_laura > > _______________________________________________ > 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. > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
