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 mailto:yung-jui.yang@yale.edu> wrote:

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

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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.edumailto: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.edumailto: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.edumailto:yung-jui.yang@yale.edu mailto:yung-jui.yang@yale.edu> wrote:

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 Freesurfer@nmr.mgh.harvard.edumailto:Freesurfer@nmr.mgh.harvard.edu mailto: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.edumailto:Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edumailto: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/

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-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edumailto: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/