mri_segstats with the --slabel option
On 09/13/2017 03:14 PM, John Anderson wrote: > It seems that this command doesn't accept input files. Are there any > commands in Freesurfer that can do similar job? > > >> -------- Original Message -------- >> Subject: Re: [Freesurfer] BA Labels >> Local Time: September 13, 2017 3:11 PM >> UTC Time: September 13, 2017 7:11 PM >> From: fis...@nmr.mgh.harvard.edu >> To: John Anderson <john.ande...@protonmail.com> >> Freesurfer support list <freesurfer@nmr.mgh.harvard.edu> >> >> you should be able to use mris_anatomical_stats I believe >> >> cheers >> Bruce >> On Wed, 13 Sep >> 2017, John Anderson wrote: >> >> > Thank you Dr Bruce, >> > The stat values for every BA are generated using the command >> mris_anatomical_stats. I found this >> > command in the stats file for one of the BAs. >> > In this stats file I see values for gray matter volume, thickness >> ,... etc. >> > >> > If I move SUV map or FA map to surface using the command >> mri_vol2surf. Then how can I generate the >> > SUV and FA values from the BA labels similar to what the >> command mris_anatomical_stats does? >> > >> > >> > -------- Original Message -------- >> > Subject: Re: [Freesurfer] BA Labels >> > Local Time: September 13, 2017 2:57 PM >> > UTC Time: September 13, 2017 6:57 PM >> > From: fis...@nmr.mgh.harvard.edu >> > To: John Anderson <john.ande...@protonmail.com>, Freesurfer support >> list >> > <freesurfer@nmr.mgh.harvard.edu> >> > >> > Hi John >> > >> > if you have run recon-all you should have a bunch of ex vivo BA >> labels in >> > the label dir. >> > >> > cheers >> > Bruce >> > On Wed, 13 Sep 2017, John Anderson wrote: >> > >> > > Dear FS experts, >> > > I have SUV maps for subjects within two groups. I moved these SUV >> maps into surface then I >> > > concatenated the images in the order of two groups then I used >> the compiled file in a glm >> > analysis >> > > to check the difference between the two groups. >> > > >> > > I aim to use V1 Atlas to derive the SUV values from the BA >> labels. I am not sure how to >> > utilize >> > > these labels in such analysis. In this context I have two questions: >> > > >> > > 1. Can these label be converted to ROIs similar to the ROIs >> derived from wmpar.mgz using the >> > command >> > > mri_binarize? >> > > >> > > 2. in WIKI it was mentioned that the command "recon-all -s subjid >> -label_v1" output the stat >> > values >> > > for every BA label. How can I derive similar stats from the SUV >> maps in the compiled file. >> > > >> > > >> > > Thanks in advance >> > > John >> > > >> > > >> > >> > >> > 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 Partners >> Compliance HelpLine at >> > http://www.partners.org/complianceline . If the e-mail was sent to >> you in error >> > but does not contain patient information, please contact the sender >> and properly >> > dispose of the e-mail. >> > >> > >> > >> > > > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
