I want to use the time series, not the contrasts for now. So I am not sure if the timeseries are provided in level 2? Because I could only find SubjID_tfMRI_WM_level2_hp200_s4.dscalar.nii which seems to be the contrasts between the conditions. and also would you please let me know which preprocessing steps have been applied to the tfMRI_WM_RL_Atlas.dtseries.nii? Thanks again, Mahshid
On Fri, May 2, 2014 at 4:10 PM, Glasser, Matthew <[email protected]>wrote: > Is there a reason you need the level1 results or can you just use the > level2 results? If the problem is the smoothing that was already applied, > the new release will not have that. > > Peace, > > Matt. > > From: <Harms>, Michael <[email protected]> > Date: Friday, May 2, 2014 at 3:00 PM > To: Mahshid Najafi <[email protected]>, "[email protected]" < > [email protected]> > Subject: Re: [HCP-Users] A Question about tfMRI_X_RL_Atlas.dtseries.nii > preprocessing steps > > > Hi Mahshid, > We are not releasing the run-level (Level1) task processed data -- only > the Level2 data, which effectively "averages" the two runs for each task > and subject. To use the level1.fsf to generate the Level1 results on the > grayordinate/CIFTI data involves transforming the CIFTI into NIFTI, merging > files, running flameo, and then converting back to CIFTI (both conversions > use -cifti-convert in wb_command). Conceptually it is straightforward, > although there is some book-keeping involved. We hope to be able to > release the HCP pipeline scripts sometime not too long after forthcoming > "500 Subjects" release, if you are willing to wait until that time. > > cheers, > -MH > > -- > 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: Mahshid Najafi <[email protected]> > Date: Friday, May 2, 2014 1:39 PM > To: "[email protected]" <[email protected]> > Subject: [HCP-Users] A Question about tfMRI_X_RL_Atlas.dtseries.nii > preprocessing steps > > Dear HCPs, > > Hi, > I want to use the grayordinate timeseries in tfMRI which are preprocessed > with level 1, (which includes smoothing and temporal filtering). So, is > tfMRI_WM_RL_Atlas.dtseries.nii in > SubjectsID/MNINonLinear/Results/tfMRI_WM_RL/ both minimally preprocessed > and level 1 preprocessed? If not, can we use > tfMRI_WM_RL_hp200_s4_level1.fsf (with modification of the inputs) for the > grayordinates data too? > > Thanks, > Mahshid > > > _______________________________________________ > 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 > > > ------------------------------ > > 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
