Thanks for putting a note on that page about how we don't recommend volume-based group-average methods.
It should be noted that the similarity between the two representations in that figure is due to the use of a group average surface for display, so that the surface representation shown is also lacking in folding definition. Display of the volume data as a slice overlaid on a T1 volume would show this lack of folding more clearly. However, it looks like the coloring scheme has been changed. Do the left and right labels still have different values in your version? Tim On Mon, Aug 8, 2016 at 1:38 PM, Andreas Horn <andy_h...@icloud.com> wrote: > Hi Andrew, > > I made a projection here: > https://figshare.com/articles/HCP-MMP1_0_projected_on_ > MNI2009a_GM_volumetric_in_NIfTI_format/3501911 > > Best, Andy > > Am 08.08.2016 um 14:34 schrieb David Van Essen <vanes...@wustl.edu>: > > Hi Andrew, > > 1) As noted in a previous thread, -cifti-separate should solve this > problem. > > On Jul 20, 2016, at 7:37 PM, Chris Gorgolewski < > krzysztof.gorgolew...@gmail.com> wrote: > Awesome - this did the trick. Thanks! > On Wed, Jul 20, 2016 at 5:03 PM, Timothy Coalson <tsc...@mst.edu> wrote: > >> Use -cifti-separate with the -label repeatable option to make the left >> and right cortex gifti label files. >> Tim >> >>> >>> 2) As noted in other recent hap-users threads, mapping the HPC_MMP1.0 > surface parcellation via a group average midthickness to a group-average > volume pays a steep price in the fidelity of spatial relationships, > particularly in regions of high individual variability in folding > patterns. We have a paper in press (Nature Neuroscience, appearing Aug 28) > that discusses this and related issues and suggests alternative analysis > strategies for more faithfully preserving spatial fidelity. > > David > > On Aug 8, 2016, at 9:14 AM, Reid, A.T. (Andrew) <a.r...@psych.ru.nl> > wrote: > > Hi all, > > For comparison purposes, we want to project the excellent new surface > parcellation to a NIFTI volume. We tried to do this in two steps using > wb_command: > > 1. Convert CIFTI to GIFTI: > wb_command -cifti-convert -to-gifti-ext Q1-Q6_RelatedParcellation210. > L.CorticalAreas_dil_Colors.32k_fs_LR.dlabel.nii glasser_labels.gii > > 2. Project labels to volume (using the nearest-vertex option): > wb_command -label-to-volume-mapping glasser_labels.gii > Q1-Q6_RelatedParcellation210.L.midthickness_MSMAll_2_d41_WRN_DeDrift.32k_fs_LR.surf.gii > MACM_F1_RostroMiddle_red.nii EssaiMap.nii -nearest-vertex 3 > > > Unfortunately, this gives an error: > > ERROR: input surface and label file have different number of vertices > > Most likely because the labels are for both hemispheres, and the surface > is only for the left hemisphere. > > Not sure where to go from here. Is there a command to combine surfaces, or > conversely to split the labels? Is there a combined surface file somewhere > available? > > Thanks, > > Andrew > > _______________________________ > > Andrew Reid > Postdoctoral Fellow > Department of Cognitive Artificial Intelligence > Donders Institute for Brain, Cognition and Behaviour > Radboud University Nijmegen > Web: http://andrew.modelgui.org/ > <https://urldefense.proofpoint.com/v2/url?u=http-3A__andrew.modelgui.org_&d=CwMFAg&c=WknmpdNpvrlj2B5K1aWVqL1SOiF30547pqSuOmtwXTQ&r=BTWOP47EynCdRIxIQsxjKLHVp-ucrpC9iMHv26t1NFM&m=y4DiXP3EHKT-ppnuw6sH4JENi0SMn5XcrCnpGj4jVJw&s=xPD2VFCvGeS108si8baJMaVxSi1T7aOzOX8Cd0KJL5s&e=> > Tel: +31 (0)24 36 55931 > > > > > > _______________________________________________ > HCP-Users mailing list > HCP-Users@humanconnectome.org > http://lists.humanconnectome.org/mailman/listinfo/hcp-users > > > _______________________________________________ > HCP-Users mailing list > HCP-Users@humanconnectome.org > http://lists.humanconnectome.org/mailman/listinfo/hcp-users > > > _______________________________________________ > HCP-Users mailing list > HCP-Users@humanconnectome.org > http://lists.humanconnectome.org/mailman/listinfo/hcp-users > _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users
