Gotcha, so you mean run mri_concat --conjunct on the original .mgh files first, and then use mri_surfcluster to extract labels from the finalized .mgh. 

By the way, mri_annotation2label works like a charm!

-- 
Yung-Jui "Daniel" Yang, PhD
Postdoctoral Researcher
Yale Child Study Center
New Haven, CT
(203) 737-5454

On 9/9/13 6:40 PM, "Douglas N Greve" <greve@nmr.mgh.harvard.edu> wrote:

You cannot. You will have to do the conjunction on the cluster sig
files, then extract a label from that.


On 09/09/2013 06:30 PM, Yang, Daniel wrote:
Thanks so much! I used the cluster analysis, I will look for the .annot there.

I am also performing a conjunction analysis. One question I have is that can I perform mri_concat on those label files? I wanted to obtain the thickness value from the regions from the conjunction analysis.

Thanks!
Daniel

On Sep 9, 2013, at 3:08 PM, "Douglas N Greve" <greve@nmr.mgh.harvard.edu> wrote:

If you have run the correction for multiple comparisons, there should be
an annotation (.annot) file in the QDEC output directory (in the
contrast folder). You can convert that into labels using
mri_annotation2label. Otherwise use Gari's suggestion.
doug



On 09/09/2013 03:00 PM, Garikoitz Lerma-Usabiaga wrote:
Hi Daniel,
you can use mri_surfcluster.
br,
Gari


On Mon, Sep 9, 2013 at 8:25 PM, Yang, Daniel <yung-jui.yang@yale.edu

     Dear all,

     Is there a way to convert .mgh to .label? My .mgh is a ROI file
     from qdec-based group analysis and I don't want to draw the ROIs
     manually.

     Thanks!
     Daniel
     --
     Yung-Jui "Daniel" Yang, PhD
     Postdoctoral Researcher
     Yale Child Study Center
     New Haven, CT
     (203) 737-5454

     _______________________________________________
     Freesurfer mailing list


     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
--
Douglas N. Greve, Ph.D.
MGH-NMR Center
Phone Number: 617-724-2358
Fax: 617-726-7422

Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
www.nmr.mgh.harvard.edu/facility/filedrop/index.html

_______________________________________________
Freesurfer mailing list


--
Douglas N. Greve, Ph.D.
MGH-NMR Center
greve@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/greve/