Yes, but at the end of the day, we are talking about function of the same brain regions regardless of how they are created/defined. Can¹t do a meta-analysis, or a validation of reported locations from one method to the other without knowing whether one author's ³R anterior insula² encompasses another¹s ctx_rh_S_circular_insula_ant. Plus, the minute you take an ROI created by Freesurfer to analyze a PET image (which cannot be surface-rendered accurately due to its inherent low resolution), you are forced to ³translate² the borders of ROIs from FS to a coordinate-based scheme anyway. BTW- it is that latter problem I am trying to troubleshoot in my data.
I will try implementing your Freeview solution; thanks again.
Andrea B.
On 1/9/16, 5:42 PM, "dgw" dgwakeman@gmail.com wrote:
Hi Andrea,
As far as I know no.
Additionally, i don't think it makes a lot of sense to do, because the two parcellations are created in fsaverage space, and while there are morphings etc. that are possible these tricks will always introduce errors etc. Additionally MNI space is defined in a completely different way to Freesurfer space, and so translating the one two the other is strange, because in FS you have locations on a surface while in MNI they are 3d coordinates. Occasionally frustrating reviewers demand MNI coordinates, likely not realizing that in that translation they are being provided with strange data, and we have to send them something, but overall, I find that picking the atlas/space which makes sense for that question is the best place to start.
hth d
On 1/9/16 12:40 PM, Andrea Bozoki wrote:
Thank you. This is helpful.
As to the broader question: is there truly no interactive, online atlas that uses either the Destrieux or Duvernoy parcellation scheme to examine the landmark boundaries with respect to, say, MNI space?
Thanks, Andrea
On 1/7/16, 4:26 PM, "dgw" dgwakeman@gmail.com wrote:
freeview partial solution
If this is important to you, you could write a quick script to do this for you:
mri_annotation2label to output all labels
write a script to launch freeview and load all of the labels
(reading the color and applying it from the FS ctab file)
e.g. freeview -f surf/lh.inflated:label=label/lh.BA1.label:label_color=255,0,0 &
3 you could then scroll through and click all of them off, and then click to load each one individually.
or perhaps a new option could be added to the surface label called :label_opacity=0 (which would uncheck the view label option).
hth d
On Thu, Jan 7, 2016 at 3:53 PM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
Hi Andrea
I'm not sure what you mean but I'm pretty certain the answer is "no".
sorry Bruce
On Thu, 7 Jan 2016, Andrea Bozoki wrote:
Is there any interactive or searchable version of the Destrieux atlas parcellations (the ones used by aparc.a2009s.annot)?
It would be very helpful to be able to toggle back and forth between individual recon-all labels and a color atlas of the relevant region when examining ROI-based quantitative output (output that is not visual).
Thanks,
Andrea B.
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