I was able to extract the time series for each label from the .ptseries.nii file in the terminal window using the wb_command -nifti-information with the -print-matrix option and then I exported that to a single text file.
Thanks Matt!! Jason ________________________________ From: Glasser, Matthew <glass...@wusm.wustl.edu> Sent: Sunday, April 26, 2015 11:57 PM To: Nomi, Jason; hcp-users@humanconnectome.org Subject: Re: [HCP-Users] Creating a parcellated connectome from a label file 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 <jxn...@miami.edu<mailto:jxn...@miami.edu>> Date: Sunday, April 26, 2015 at 3:53 PM To: "hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>" <hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>> 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 _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org<mailto:HCP-Users@humanconnectome.org> http://lists.humanconnectome.org/mailman/listinfo/hcp-users ________________________________ The materials in this message are private and may contain Protected Healthcare Information or other information of a sensitive nature. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this email in error, please immediately notify the sender via telephone or return mail. _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users
