Hi,

 I want to overlay  my QDEC clusters on the connectivity maps in FSL  on the MNI ( this is the template I use for my connectivity maps). I am not sure how I can mention the label of my clusters, the uncorrected clusters.
Should I use the sig.mgh as subject id, my clusters were obtained from all my subjects or it should be the fsaverage? Should I use mri_label2vol or mri_surf2vol?

How I can identify the label of my clusters more exactly how I can keep only the clusters (name and size) from QDEC as in thefollowing table or

 where I can find for each QDEC's cluster the label so I can use it under --label option ?

mri_label2vol
  --label ???
  --temp MNI152_T1_1mm_brain.nii.gz
  --reg $FREESURFER_HOME/average/mni152.register.dat
  --fillthresh .5
  --subject /lh-Diff-Class1-Class2-Intercept-thickness/sig.mgh --hemi lh
  --o precentral-lh.nii

Also is the 0.5 the  threshold  I  need to use with mri_label2vol under option --fillthresh if I want to get  my uncorrected clusters? How can I do this if as below I have two clusters in the same region?

Contrast: 'lh-Diff-Class1-Class2-Intercept-thickness', 15fwhm, DOF: 69
ClusterNo  Max   VtxMax  Size(mm2)   TalX   TalY   TalZ NVtxs Annotation
---------  ---   ------  ---------   ----   ----   ---- ----- ----------
    1   -3.8743   18231    944.60   -39.8    1.5   14.1 2631  precentral
    2   -3.8065   47386    1445.46    -8.2   33.1   33.9 2421  superiorfrontal
    3   -2.8630  158749    181.92   -12.7  -12.6   46.4  506  superiorfrontal
    4   -2.7960   73670    222.37   -33.7    0.9    8.1  564  insula
    5    2.7914   52279    204.80    -9.8  -98.6    4.6  248  pericalcarine
    6   -2.7364   43605    173.45   -41.4  -79.2   21.8  288  inferiorparietal
    7   -2.6316   17412    301.53   -38.3    5.6  -36.8  439  temporalpole
    8    2.6050  150788     64.40   -24.0  -59.1   54.7  165  superiorparietal
    9   -2.5570  106020     75.96   -22.8   -8.6   47.9  200  precentral
   10   -2.5070   88002     66.59   -17.6  -31.2   37.8  198  posteriorcingulate
   11   -2.4736  113974    181.87   -52.7  -10.3  -26.6  236  middletemporal
   12   -2.4496  118370    142.88   -43.6  -18.0  -25.5  289  inferiortemporal
   13   -2.3087  111885     55.43   -46.6  -36.2   -3.9  165  bankssts
   14   -2.2179  153596     36.91   -11.3    3.4   42.0  103  superiorfrontal
   15   -2.1861  145681     95.36   -11.3   60.1   19.1  147  superiorfrontal
   16   -2.1733   29252     59.92   -42.6   37.5   -4.4   92  parstriangularis
   17   -2.1689  155583     34.83   -45.3  -14.7  -11.2   87  superiortemporal
   18   -2.1636   22443     27.76   -41.6  -79.0   -3.1   43  lateraloccipital
   19   -2.1592  139736     21.75   -47.5  -25.1   37.0   61  postcentral
   20   -2.0221   19174      4.10   -34.2   33.8   29.2    6  rostralmiddlefrontal

---

From: Douglas N Greve <greve@nmr.mgh.harvard.edu>
To: freesurfer@nmr.mgh.harvard.edu
Sent: Tuesday, August 21, 2012 4:55 PM
Subject: Re: [Freesurfer] Convert QDEC clusters on the MNI_152_T1 space

You can use mri_label2vol and $FREESURFER_HOME/average/mni152.register.dat
doug

On 08/21/2012 11:06 AM, Antonella Kis wrote:
> Dear All,
>
> Is possible to overlap my QDEC clusters onto MNI_152_T1 _1mm_brain
> template?
>
> Thank you.
> Antonella
>
>
> _______________________________________________
> Freesurfer mailing list
> Freesurfer@nmr.mgh.harvard.edu
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MGH-NMR Center
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