Hi Tim, Thank you very much for your kind suggestion. After the preprocessing of FSFAST I got the left and right surface-based data in 'nii.gz' format. Following the instructions I converted them to .gii format with mris_convert first, then to func.gii with the command "wb_command -metric-resample <metric-in> <current-sphere> <new-sphere> ADAP_BARY_AREA <metric-out> -area-metrics <current-area> <new-area>". I am new to the HCP pipeline, may I ask what I missed and how could I further convert the "func.gii" to the "cifti format"? And how to check if this resample is right? The cifti file should also include the subcortical regions, right? Do I need to combine the left and right surface and subcortcial volume into one cifti file? Sorry for the very basic questions. Thank you very much.
Best wishes, Zhi Li On Tue, 27 Nov 2018 at 16:09, Timothy Coalson <tsc...@mst.edu> wrote: > The HCP MMP v1.0 parcellation is defined on MSMAll-registered surfaces. I > am not familiar with FSFAST, but if it gives you surface-based data, you > should be able to resample the data or parcellation so that they are on the > same mesh, following these instructions: > > > https://wiki.humanconnectome.org/display/PublicData/HCP+Users+FAQ#HCPUsersFAQ-9.HowdoImapdatabetweenFreeSurferandHCP > ? > > If you resample/convert your timeseries data to cifti .dtseries.nii in our > standard grayordinates, then the wb_command -cifti-parcellate command can > extract average timeseries of all the ROIs in our parcellation (or any > parcellation represented in our standard grayordinates). > > Note that we do not recommend using any group-average volume methods for > human cortical data, because volume-based registration doesn't deal > particularly well with intersubject differences in cortical folding (or in > functional location compared to folds): > > https://www.ncbi.nlm.nih.gov/pubmed/29925602 > > Tim > > > > On Mon, Nov 26, 2018 at 5:28 PM Zhi Li <lizhi.ps...@gmail.com> wrote: > >> Hello HCP experts, >> >> I would like to extract time series from the FSFAST-preprocessed fMRI >> data (acquired with traditional scanning protocol) with the HCP average >> template, may I know where I could find it (annotation format) ? I read >> from another post that I could use mri_aparc2aseg to map it to the >> anatomical volume. Do you have any other suggestions on extracting time >> series with the HCP rois? Thank you very much. >> >> Best wishes, >> >> Zhi Li >> >> _______________________________________________ >> 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
