Usually one uses tfce on a stat map output from inferential statistics, not on the input data. You can use PALM for this.
Matt. From: 杨国元 <yangguoy...@pku.edu.cn<mailto:yangguoy...@pku.edu.cn>> Date: Tuesday, January 8, 2019 at 11:24 PM To: Matt Glasser <glass...@wustl.edu<mailto:glass...@wustl.edu>> Subject: Re: Re: Question about HCP pipeline structural data Hi Matthew, I have a question about wb_command. We have two group of metric surface file which in standard 32k surface. Using the wb_command -metric-tfce I can obtain each metric surface output which have enhanced the SNR. Nest step is the permutation test between those two enhanced metric surface groups. Can I use wb_command to do that? Or other method? Best Guoyuan -----原始邮件----- 发件人:"Glasser, Matthew" <glass...@wustl.edu<mailto:glass...@wustl.edu>> 发送时间:2018-11-28 06:38:30 (星期三) 收件人: "杨国元" <yangguoy...@pku.edu.cn<mailto:yangguoy...@pku.edu.cn>> 抄送: "hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>" <hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>> 主题: Re: Question about HCP pipeline structural data Hi Guoyuan, Surfaces were made in native subject’s physical space (in ${StudyFolder}/${Subject}/T1w) after correcting for distortions. They can be transformed into MNI space after the fact using the same registration as was run on the volume files. If you wanted to make group average surface templates, you should use the ones on a standard mesh (e.g. 164k or 32k) in MNI space. Surfaces in Native folders are FreeSurfer’s original mesh. Matt. From: 杨国元 <yangguoy...@pku.edu.cn<mailto:yangguoy...@pku.edu.cn>> Date: Tuesday, November 27, 2018 at 9:59 AM To: Matt Glasser <glass...@wustl.edu<mailto:glass...@wustl.edu>> Subject: Question about HCP pipeline structural data Dear Matthew: I'm sorry to bother you.I'm a PhD student form Peking University of China. I have a few questions about HCP pipeline structural data. 1. I want to use HCP pipeline to preprocess Chinese adult MRI data,then using output native xxx.surf.gii, xxx.shape.gii and xxx.func.gii files to construct Chinese surface brain templates.(including pial, white matter, sphere. myelin, curvature, thickness). While in results of Subjects/T1w/Native folder, there only including xxx.surf.gii, not include xxx.shape.gii. In Subject/MNINonLinear/Native I found the xxx.shape.gii. So I want to know these feature maps was constructed using native T1 images or using nonlinear warped to MNI space T1 images. Should I use the surf.gii file from Subjects/T1w/Native and shape.gii from Subject/MNINonLinear/Native to construct Brain template? 2. What difference in surf.gii files located in Subject/MNINonLinear/Native and Subject/MNINonLinear. I found they have the same topology but different surface space. Like midthickness.surf.gii, both in /MNINonLinear/Native and Subject/MNINonLinear were nonlinear transfromed to Conte69 midthickness.surf.gii. Only the files in Subjects/T1w/Native were not transformed to Conte69 atlas. I understand was right? Best, Guoyuan Guoyuan Yang Center for MRI Research School of Physics Peking University Beijing, China Tel：18800172884 Email：yangguoy...@pku.edu.cn<mailto:Email：yangguoy...@pku.edu.cn> ________________________________ 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. Guoyuan Yang Center for MRI Research School of Physics Peking University Beijing, China Tel：18800172884 Email：yangguoy...@pku.edu.cn<mailto:Email：yangguoy...@pku.edu.cn> ________________________________ 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
