Re: [HCP-Users] Workbench Tutorial Data

I went back and had a look at this data. It looks like an ICA+FIX like approach was applied, the mean grey matter time course was removed, and it was reconstructed from a d=50 ICA. I am assuming what you like about the dataset is the reduction to the 50 highest PCs, which removes the

Re: [HCP-Users] 2 thickness files

Whether to use MSMAll vs MSMSulc depends on whether you want to have folds aligned or areas. For most kinds of neuroimaging analyses, having areas aligned is most desirable, but if you are interested in folding patterns or the effects of folding on cortical thickness you might prefer the

Re: [HCP-Users] 2 thickness files

Yes, that is correct. The creation of the corrThickness file is done in the CreateMyelinMaps.sh script in the PostFreeSurfer pipeline: ${CARET7DIR}/wb_command -metric-regression "$AtlasSpaceFolder"/"$NativeFolder"/"$Subject"."$Hemisphere".thickness.native.shape.gii

Re: [HCP-Users] 2 thickness files

I have a follow-up question on what you mean by "regressed out." If thickness_v = b0 + b1*curvature_v + error_v for the vth location, is corrThickness_v = thickness_v - b1*curvature_v? Also, I am conducting a multisubject analysis of cortical thickness. Is it your opinion that MSM-All offers the

Re: [HCP-Users] Workbench Tutorial Data

​ HCPfilterdNorm.mpg ​​ HCPicacleaned.mpg ​​ HCPMSALLraw.mpg

Re: [HCP-Users] 2 thickness files

Thickness is the raw thickness output from FreeSurfer. CorrThickness has the linear effects of curvature regressed out. It is better for seeing how thickness changes across cortical areas (as the surface folding exerts a strong effect on cortical thickness by making gyri thicker and sulci

[HCP-Users] 2 thickness files

Dear Experts, What is the difference between subID.L.corrThickness.native.shape.gii and subID.L.thickness.native.shape.gii? Both are in the preprocessed directory, MNINonLinear/Native For example: 100307.L.corrThickness.native.shape.gii and 100307.L.thickness.native.shape.gii Where I can