Dear Matt, thanks so much for your quick response! Unfortunately, the cifti data doesn’t apply to our question since we need whole-brain coverage. Could you by any chance specify how nonlinear volumetric normalization was done in case of the file I mentioned?
Thanks so much! Best, Andy -- Andreas Horn, MD Laboratory for Brain Network Imaging and Modulation Berenson-Allen Center for Noninvasive Brain Stimulation Department for Neurology, Beth Israel Deaconess Center Harvard Medical School 330 Brooklin Avenue, Kirstein Building KS 423 02215 Boston t: +1 6174077649 w: http://www.brainnetworkstim.com On Nov 11, 2016, at 5:30 PM, Glasser, Matthew <[email protected]<mailto:[email protected]>> wrote: That file has had linear trends removed (sigma=2000s highpass filtering), 24 movement parameters removed, and noise ICA components removed. It has not had global physiological noise removed as we have not yet released a good way of doing this. No spatial smoothing has been applied. In general, we don’t recommend using this data for cross-subject analysis because of poor alignment across subjects from non-linear volume registration. The recommended data to use is the CIFTI data aligned on the surface with areal feature-based registration: ${StudyFolder}/${Subject}/MNINonLinear/Results/${fMRIName}/${fMRIName}_Atlas_MSMAll_hp2000_clean.dtseries.nii Peace, Matt. From: <[email protected]<mailto:[email protected]>> on behalf of "Horn,Andreas (BIDMC - Neurology)" <[email protected]<mailto:[email protected]>> Date: Friday, November 11, 2016 at 5:41 PM To: "[email protected]<mailto:[email protected]>" <[email protected]<mailto:[email protected]>> Subject: Re: [HCP-Users] L-R or R-L phase encoding? Dear HCP-Users, I am looking for preprocessed rs-fMRI data of all 900 HCP subjects (if available). Would the file: HCP/hcp-openaccess/HCP_900/100307/MNINonLinear/Results/rfMRI_REST1_LR/rfMRI_REST1_LR_hp2000_clean.nii.gz be such a file? I.e. is it already preprocessed in a standard way? I learned it is cleaned by ICA but what else has been done with it? I know about the four runs and how to concatenate them after subtracting the mean signal as described here<https://urldefense.proofpoint.com/v2/url?u=https-3A__www.mail-2Darchive.com_hcp-2Dusers-40humanconnectome.org_msg01558.html&d=CwMFAw&c=WknmpdNpvrlj2B5K1aWVqL1SOiF30547pqSuOmtwXTQ&r=BTWOP47EynCdRIxIQsxjKLHVp-ucrpC9iMHv26t1NFM&m=1uKLS6QNG06r1RjFu5MJqSZoFifmP81eLwFPvW_ni7E&s=0PVzMmhRd1GgCw286vaEL4XFnJy9T3ijHyaGOd474aU&e=>. Thanks so much for your help, Andreas ________________________________ This message is intended for the use of the person(s) to whom it may be addressed. It may contain information that is privileged, confidential, or otherwise protected from disclosure under applicable law. If you are not the intended recipient, any dissemination, distribution, copying, or use of this information is prohibited. If you have received this message in error, please permanently delete it and immediately notify the sender. Thank you. _______________________________________________ HCP-Users mailing list [email protected]<mailto:[email protected]> http://lists.humanconnectome.org/mailman/listinfo/hcp-users<https://urldefense.proofpoint.com/v2/url?u=http-3A__lists.humanconnectome.org_mailman_listinfo_hcp-2Dusers&d=CwMFAw&c=WknmpdNpvrlj2B5K1aWVqL1SOiF30547pqSuOmtwXTQ&r=BTWOP47EynCdRIxIQsxjKLHVp-ucrpC9iMHv26t1NFM&m=1uKLS6QNG06r1RjFu5MJqSZoFifmP81eLwFPvW_ni7E&s=bbh3Vr485ZkhY3SbEvxDLTjUlrbcwC9b9UhlrC7tYAM&e=> ________________________________ 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 [email protected] http://lists.humanconnectome.org/mailman/listinfo/hcp-users
