Thanks David & Andreas for the quick responses! I am quite interested in the surface-volume issues, can’t wait to see the new article :)
Kind regards, 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/ Tel: +31 (0)24 36 55931 On Aug 8, 2016, at 8:38 PM, Andreas Horn <andy_h...@icloud.com<mailto: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<mailto: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<mailto: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<mailto: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<mailto: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<mailto:HCP-Users@humanconnectome.org> http://lists.humanconnectome.org/mailman/listinfo/hcp-users _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org<mailto: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
