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wb_command -cifti-parcellate is indeed the first step. The next step you could load the resulting .ptseries.nii file into matlab or use wb_command -nifti-information with the -print-matrix option to output the terminal window, which you could redirect
to a text file. I don’t know if this is in the released version yet, but the development version has the ability to use wb_command -cifti-convert to convert the file -to-text.
Peace,
Matt.
From: <Nomi>, Jason <[email protected]>
Date: Sunday, April 26, 2015 at 3:53 PM To: "[email protected]" <[email protected]> Subject: [HCP-Users] Creating a parcellated connectome from a label file Dear Experts,
I am trying to create a parcellated connectome from a label file based off of the Gordon et al., 2014 (Cerebral Cortex) paper. They have provided a dlabel.nii file consisting of 333 parcels in both the left (162 parcels) and right (172 parcels) hemispheres (http://www.nil.wustl.edu/labs/petersen/Resources.html).
Eventually, I would like to acquire the time series for subcortical and cerebellar areas for a whole brain parcellated connectome, but this would be the first step.
I would like to get a series of text files (or even better: a single text file with each parcel/ROI as a single column) for each subject based off of the label file provided by Gordon et al.
I am not sure exactly what to do here. I have been reading through the posts on the forum and assume I might perhaps start with the -cifti-parcellate command:
wb_command -cifti-parcellate <s_001_dtseries.nii> <gordon_LR.dlabel.nii> COLUMN <output.nii>
I assume (hope?) the output file contains the average time series for each parcel as defined from the gordon_LR.dlabel.nii file??
However, I am unsure how I would acquire the time series information in text file form from this output file.
Am I even in the right ballpark here??
Any help would be appreciated as I have not worked with surface data yet.
Thanks in advance!
best, Jason
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- [HCP-Users] Creating a parcellated connectome from a labe... Nomi, Jason
- Re: [HCP-Users] Creating a parcellated connectome fr... Glasser, Matthew
