Hi Michael, Thanks for your help. I have a few more questions below..
Has an average timeseries for WM (and CSF) signal been already computed by HCP? Perhaps this is the "rfMRI_REST1_LR_WM.txt" and the "rfMRI_REST1_LR_CSF.txt" in the FIX extended package? Is there a recommended way of regressing these out? Related to my previous question: Has physiological data (“rfMRI_REST1_LR_Physio_log”) already been regressed from the FIX denoised data? I cannot actually find a rfMRI Physio log file in the FIX-ed dataset, I can only find this Physio log file in the minimally preprocessed dataset. I suppose I can use that one? But I'd assume there should be one in the FIX-ed dataset folder as well... Thanks, Joelle On Wed, Dec 9, 2015 at 2:43 PM, Harms, Michael <[email protected]> wrote: > > Hi, > See inline below. > > -- > Michael Harms, Ph.D. > ----------------------------------------------------------- > Conte Center for the Neuroscience of Mental Disorders > Washington University School of Medicine > Department of Psychiatry, Box 8134 > 660 South Euclid Ave. Tel: 314-747-6173 > St. Louis, MO 63110 Email: [email protected] > > From: Joelle Zimmermann <[email protected]> > Date: Wednesday, December 9, 2015 1:26 PM > To: "[email protected]" <[email protected]> > Subject: [HCP-Users] FIX-denoised > > Hi everyone, > > I'm interested in using the FIX-denoised data, and am currently looking at > the extended package, as I'm interested in the volumetric data. > > I'm wondering whether the motion parameters have already been regressed > out from the FIX denoised rfMRI_REST1_LR_hp2000_clean.nii.gz? > YES > > I'm assuming yes, that the FIX denoised actually already deals with this > by separating the motion-related noise into a component and filtering that > out of the signal? I assume so based on the following snippet from the > manual describing FIX-ed data: > "As part of this cleanup, we also used 24 confound timeseries derived from > the motion estimation (the 6 rigid-body parameter timeseries, their > backwards-looking temporal derivatives, plus all 12 resulting regressors > squared — Satterthwaite et al., 2013). The motion parameters have the > temporal highpass filtering applied to them and are then regressed out of > the data aggressively, as they are not expected to contain variance of > interest." > Am I correct? > YES > > Has white matter and/or cerebrospinal fluid been regressed already from > the FIX denoised fMRI timeseries? > NO > > Has physiological data (“rfMRI_REST1_LR_Physio_log”) already been > regressed from the FIX denoised data? > NO > > Any pointers would be much appreciated. > > Thanks, > Joelle > > > > > > > _______________________________________________ > HCP-Users mailing list > [email protected] > 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 [email protected] http://lists.humanconnectome.org/mailman/listinfo/hcp-users
