Hi - yes I would very much hope so! Cheers.
> On 28 Feb 2015, at 06:18, Aaron C <aaroncr...@outlook.com> wrote: > > Thank Dr. Smith very much for his very helpful answers. > > I have one more question about the extensively processed rfMRI data of > “parcellation-timeseries-netmats”. I think I saw the vitamin E capsule in the > left side of the unprocessed structural image, which should be the subject’s > right side, based on the description in the HCP manual. Will the HCP > preprocessing and parcellation-timeseries-netmats extensively processing > pipeline keep the left and right? For these ICA spatial maps in the > volumetric file “melodic_IC_sum.nii.gz”, may I confirm that the left side of > the ICA spatial maps displayed in FSLView is still the subject’s right side? > > Thanks again. > > Subject: Re: [HCP-Users] Questions about the extensively processed rfMRI data > From: st...@fmrib.ox.ac.uk > Date: Wed, 25 Feb 2015 06:21:36 +0100 > CC: hcp-users@humanconnectome.org > To: aaroncr...@outlook.com > > Hi > > On 25 Feb 2015, at 03:39, Aaron C <aaroncr...@outlook.com > <mailto:aaroncr...@outlook.com>> wrote: > Dear HCP users, > I have some questions about the extensively processed rfMRI data of > “parcellation-timeseries-netmats”. Their filenames are > “groupICA_3T_Q1-Q6related468_MSMsulc.tar.gz”, > “NodeTimeseries_3T_Q1-Q6related468_MSMsulc_ICAd*_ts*.tar.gz”, and > “netmats_3T_Q1-Q6related468_MSMsulc_ICAd*_ts*.tar.gz”. > > 1. For nodes, is there any specific threshold applied to the ICA spatial map > to obtain the parcel? > > No - thresholding was only used to generate the thumbnail overlays. > > I see from an old message of this mailing list that the thumbnail images were > obtained by thresholding the ICA spatial map at Z>6. But how about the > threshold for obtaining that parcellation? Is that also Z>6? > 2. These ICA spatial maps were obtained from the ICA+FIX preprocessed data, > therefore, given the dimensionality of 100 as an example, are all these 100 > components non- artifactual? > > Not necessarily; there can still be some artefactual processes left in the > data, and out of (eg) 100 components there can possibly be a few artefactual > ones. We have not attempted to classify those group-level components in the > PTN release. > > 3. For these netmat *.pconn.nii files, are the first column corresponded to > the first ICA component shown in the thumbnail image “0000.png” in the folder > “melodic_IC_sum.sum”, the second column corresponded to the second thumbnail > image “0001.png” in the folder, and so on? > > Yes > > 4. For these thumbnail PNG images, could I find any annotation regarding the > corresponding dominant brain region on the HCP website (e.g., something > similar to the annotations in Figure 4(A) of Dr. Smith et al.’s paper > http://www.ncbi.nlm.nih.gov/pubmed/24238796 > <http://www.ncbi.nlm.nih.gov/pubmed/24238796>)? > > Sorry - we haven't tried to annotate the PTN components. > > 5. Have these data ever been global signal regressed? > > No. > > Cheers, Steve. > > > > > Many thanks! > > _______________________________________________ > HCP-Users mailing list > HCP-Users@humanconnectome.org <mailto:HCP-Users@humanconnectome.org> > http://lists.humanconnectome.org/mailman/listinfo/hcp-users > > > --------------------------------------------------------------------------- > Stephen M. Smith, Professor of Biomedical Engineering > Associate Director, Oxford University FMRIB Centre > > FMRIB, JR Hospital, Headington, Oxford OX3 9DU, UK > +44 (0) 1865 222726 (fax 222717) > st...@fmrib.ox.ac.uk <mailto:st...@fmrib.ox.ac.uk> > http://www.fmrib.ox.ac.uk/~steve <http://www.fmrib.ox.ac.uk/~steve> > --------------------------------------------------------------------------- > > > > > > > > _______________________________________________ > HCP-Users mailing list > HCP-Users@humanconnectome.org > http://lists.humanconnectome.org/mailman/listinfo/hcp-users --------------------------------------------------------------------------- Stephen M. Smith, Professor of Biomedical Engineering Associate Director, Oxford University FMRIB Centre FMRIB, JR Hospital, Headington, Oxford OX3 9DU, UK +44 (0) 1865 222726 (fax 222717) st...@fmrib.ox.ac.uk http://www.fmrib.ox.ac.uk/~steve <http://www.fmrib.ox.ac.uk/~steve> --------------------------------------------------------------------------- Stop the cultural destruction of Tibet <http://smithinks.net/> _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users
