To Whom it may concern, In this thread: https://www.mail-archive.com/hcp-users@humanconnectome.org/msg06276.html
I found a reference to eroded white matter masks for HCP subjects that should be stored in MNINonLinear/ROIs/CSFReg.2.nii MNINonLinear/ROIs/WMReg.2.nii but after running the HCP pipeline on my own data, these outputs don’t seem to be there. Were these files created ad hoc for this release and would you have a recommended way of obtaining comparable masks? To give you a context, I would like to extract white matter and CSF signals to use aCompCor and add confound regressors to my task GLMs. I was also wondering, in the absence of these masks would it make sense to use atlas-based masks in MNI space and extract the signals from the MNI warped images, like for example /Volumes/LT_storage/Trevor_study/EMOTION_PREPROC/100307/MNINonLinear/Results/tfMRI_EMOTION_LR . Would this be acceptable, for example in the case in which I were to download only the task data from your release (so I wouldn’t have the original T1s)? If not, is there another approach you would recommend? Thank you very much, Leonardo Tozzi, MD, PhD Williams PanLab | Postdoctoral Fellow Stanford University | 401 Quarry Rd lto...@stanford.edu<mailto:lto...@stanford.edu> | (650) 5615738 _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users
