To use the HCP Pipelines you need T1w and T2w images (SPACE ideally). You can find the HCP Pipelines code here:
https://github.com/Washington-University/Pipelines And here is the related paper: http://www.sciencedirect.com/science/article/pii/S1053811913005053 Peace, Matt. From: <hcp-users-boun...@humanconnectome.org<mailto:hcp-users-boun...@humanconnectome.org>> on behalf of Jaiashre Sridhar <jaiashre.srid...@northwestern.edu<mailto:jaiashre.srid...@northwestern.edu>> Date: Monday, March 7, 2016 at 12:05 PM To: "hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>" <hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>> Subject: [HCP-Users] Freesurfer reconstruction pipeline for HCP protocol Hi, We have acquired a T1 sequence on Siemens Prisma 3T magnet using the following protocol: Series Desc MPRAGE_SAG_0pt7mmiso Frames 240 Image Type ORIGINAL\PRIMARY\M\NORM\DIS2D Field Strength 3.0 Vox. Res. 0.69999998807907, 0.69999998807907, 0.69999998807907 FOV 320 x 320 TR 2400.0 TE 3.34 TI 1000.0 Flip 8 I had used the Freesurfer version 5.1.0 recon-all pipeline with expert options (mri_normalize -b 20 -n 5). The reconstruction looks pixelated as shown in the attachment. Is there any additional processing steps that has to be included for the HCP protocol? Thanks, Jaiashre. _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org<mailto: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
