Re: [HCP-Users] Clarification in change in fMRI reconstruction algorithm

[Harms, Michael]

Hi Ben, The following replies to your questions are from Steen Moeller (cc’ed) at CMRR. 1/ the reconstruction for all HCP data is performed using the slice-grappa algorithm. There was a change in Q3 that improved on the implementation of it relative to some low-level sequence detail concerning the use of the blipping scheme in blipped-CAIPI reference data. The choosen algorithm however has stayed the same. The SpSg algorithm has not been used, but is available in new versions of the sequence. 2/ the individual coil data are not available. If this is only needed for a single session, that can then be made available for a representative dataset. If so then email me directly to make this available. cheers, --  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: mha...@wustl.edu From: <hcp-users-boun...@humanconnectome.org> on behalf of Benjamin Risk <bb...@cornell.edu> Date: Monday, May 9, 2016 at 10:41 PM To: "Glasser, Matthew" <glass...@wustl.edu> Cc: "hcp-users@humanconnectome.org" <hcp-users@humanconnectome.org> Subject: Re: [HCP-Users] Clarification in change in fMRI reconstruction algorithm They didn't use in-plane GRAPPA but they used a multi-band variant on GRAPPA. Setsompop 2012 is called Slice-GRAPPA. I am asking about the details of the multiband reconstruction. Thanks, Ben On Mon, May 9, 2016 at 10:51 PM, Glasser, Matthew <glass...@wustl.edu> wrote: fMRI didn’t use GRAPPA, rather it was an update to the multi-band reconstruction. Peace, Matt. From: <hcp-users-boun...@humanconnectome.org> on behalf of Benjamin Risk <bb...@cornell.edu> Date: Monday, May 9, 2016 at 12:55 PM To: "hcp-users@humanconnectome.org" <hcp-users@humanconnectome.org> Subject: [HCP-Users] Clarification in change in fMRI reconstruction algorithm Dear HCP experts, I have two questions: 1) I understand that the reconstruction algorithm for fMRI changed with the Q3 data release. I believe there are three main GRAPPA reconstruction approaches for multiband imaging: SENSE/GRAPPA from Blaimer et al (2006); Slice-GRAPPA from Setsompop et al (2012); and Split-Slice-GRAPPA from Cauley et al (2014). Do the HCP reconstruction algorithms correspond to these methods? From my reading of Ugurbil et al 2013, p. 89, I thought the change was from SENSE/GRAPPA to Slice-GRAPPA, but I now see that the overview document http://www.cmrr.umn.edu/multiband/Multi-Band_C2P_Instructions_R013a.pdf includes a citation to Cauley. 2) I ultimately want to simulate data generated by coil sensitivities similar to the HCP scanners and head coils. Are single-band calibration data for each coil available?  Thank you, Ben Risk Postdoc at SAMSI / Department of Biostatistics UNC Chapel Hill _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org 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 HCP-Users@humanconnectome.org 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 HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users