External Email - Use Caution Dear freesurfer expert: I use freesurfer to preprocess the fmri signal. It generates three final files: fmcpr.up.sm5.fsaverage.lh.nii.gz, fmcpr.up.sm5.fsaverage.rh.nii.gz, and fmcpr.up.sm5.mni305.2. However I want to extract the subcortical area signal, for example the signal on the hippocampus. How could I extract the signal in the subcortical areas and find their labels and corresponding files? Thank you Mingyang
On Tue, May 31, 2022 at 8:16 AM Douglas N. Greve <dgr...@mgh.harvard.edu> wrote: > what do you man by the label of the file? If you want a mask, there > should be a mask in the mask folder > > On 5/23/2022 10:05 PM, Mingyang Xia wrote: > > External Email - Use Caution > Dear Freesurfer expert: > I am Mingyang Xia. I use freesurfer to preprocess the fmri data and map > to the fsaverage and generate a file named fmcpr.up.sm5.mni305.2mm.nii.gz. > I want to get the label of this file however I could not find the label in > the fsaverage folder. Could you give me some advice? > Thank you > Mingyang Xia > > _______________________________________________ > Freesurfer mailing > listfreesur...@nmr.mgh.harvard.eduhttps://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > <https://secure-web.cisco.com/17D7Bw2vtICAGAP-bVbeyO4lq0A1m4SnyunZdBspwV2B5n73F4UIlNo1J_G-wCiTBU4pha6wWfMr_Z9GUWU3Ion45Vl8e9Qf-j0uk12JIRl_DGbtxFcg5b2ABy8LRo0eJjdKHb05o59XurM_AJKIdHOZ0d3uEVml1czeQ-5DwuxHnU5yK9hGJFGPXKvQznrguILOJ5vh2oXqbB1KZQTEGxJdmTkARS5yGw513MyJkKBJxUo_VK_YcGwoHXi7-bazrAm6qeUsTq5MahFwWlZhIjUfaMvxSE1twaNYuxs-920C6p9UfI9KHvEhH2_cTzogpPyzRRdRcASfyiz0L4CZ4lw/https%3A%2F%2Furldefense.com%2Fv3%2F__https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer__;!!LIr3w8kk_Xxm!vWtpM8HCCIRjFLr2rlEKhbHZG_MsCo01rhbVCmDc2YWn1WVZjXGd59FAJ7CDpnLXwzLGokN0q00xBfRRiCZ_3w$> > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > > https://secure-web.cisco.com/17D7Bw2vtICAGAP-bVbeyO4lq0A1m4SnyunZdBspwV2B5n73F4UIlNo1J_G-wCiTBU4pha6wWfMr_Z9GUWU3Ion45Vl8e9Qf-j0uk12JIRl_DGbtxFcg5b2ABy8LRo0eJjdKHb05o59XurM_AJKIdHOZ0d3uEVml1czeQ-5DwuxHnU5yK9hGJFGPXKvQznrguILOJ5vh2oXqbB1KZQTEGxJdmTkARS5yGw513MyJkKBJxUo_VK_YcGwoHXi7-bazrAm6qeUsTq5MahFwWlZhIjUfaMvxSE1twaNYuxs-920C6p9UfI9KHvEhH2_cTzogpPyzRRdRcASfyiz0L4CZ4lw/https%3A%2F%2Furldefense.com%2Fv3%2F__https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer__;!!LIr3w8kk_Xxm!vWtpM8HCCIRjFLr2rlEKhbHZG_MsCo01rhbVCmDc2YWn1WVZjXGd59FAJ7CDpnLXwzLGokN0q00xBfRRiCZ_3w$ > The information in this e-mail is intended only for the person to whom it > is addressed. If you believe this e-mail was sent to you in error and the > e-mail contains patient information, please contact the Mass General > Brigham Compliance HelpLine at > https://secure-web.cisco.com/1YiQf649ySDFkP-yQaxygLhS_IcZWnUWhxrfK81NQwtVdvcrp1DCFXR65jqH8f_K6_6fS-NoBc3JdIuAbLq-xbau1zO5oBjHyPQjN4viW1SOvSju8xUAmYL9RuycRIPkddb3lZLs51pLeA8_YQgFcxkUogTlYgMTODQ3kA6cksvyaROS-6FpOijqHRfiZH_7to_GeYAdWx_6STuX9p7aLbr45cWGXZPhnzrrc7aa3xZgN_TWPB27RYdkuvzLu9xJBCXd8V7XjyKBINYdHM1Xn-WPEwRO2dURyOytN8-R-BclLeN_aB2AGhETRsWFCqtru4dADTJu0B76mRX2YJTfZjw/https%3A%2F%2Furldefense.com%2Fv3%2F__https%3A%2F%2Fwww.massgeneralbrigham.org%2Fcomplianceline__;!!LIr3w8kk_Xxm!vWtpM8HCCIRjFLr2rlEKhbHZG_MsCo01rhbVCmDc2YWn1WVZjXGd59FAJ7CDpnLXwzLGokN0q00xBfRflqlXRA$ > < > https://secure-web.cisco.com/1YiQf649ySDFkP-yQaxygLhS_IcZWnUWhxrfK81NQwtVdvcrp1DCFXR65jqH8f_K6_6fS-NoBc3JdIuAbLq-xbau1zO5oBjHyPQjN4viW1SOvSju8xUAmYL9RuycRIPkddb3lZLs51pLeA8_YQgFcxkUogTlYgMTODQ3kA6cksvyaROS-6FpOijqHRfiZH_7to_GeYAdWx_6STuX9p7aLbr45cWGXZPhnzrrc7aa3xZgN_TWPB27RYdkuvzLu9xJBCXd8V7XjyKBINYdHM1Xn-WPEwRO2dURyOytN8-R-BclLeN_aB2AGhETRsWFCqtru4dADTJu0B76mRX2YJTfZjw/https%3A%2F%2Furldefense.com%2Fv3%2F__https%3A%2F%2Fwww.massgeneralbrigham.org%2Fcomplianceline__;!!LIr3w8kk_Xxm!vWtpM8HCCIRjFLr2rlEKhbHZG_MsCo01rhbVCmDc2YWn1WVZjXGd59FAJ7CDpnLXwzLGokN0q00xBfRflqlXRA$ > > . > Please note that this e-mail is not secure (encrypted). If you do not > wish to continue communication over unencrypted e-mail, please notify the > sender of this message immediately. Continuing to send or respond to > e-mail after receiving this message means you understand and accept this > risk and wish to continue to communicate over unencrypted e-mail. >
_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Mass General Brigham Compliance HelpLine at https://www.massgeneralbrigham.org/complianceline <https://www.massgeneralbrigham.org/complianceline> . Please note that this e-mail is not secure (encrypted). If you do not wish to continue communication over unencrypted e-mail, please notify the sender of this message immediately. Continuing to send or respond to e-mail after receiving this message means you understand and accept this risk and wish to continue to communicate over unencrypted e-mail.
