External Email - Use Caution Bruce, The help file and wiki don't explain the units of the min, max, and del. I still can't get the data to sample onto the surface correctly and so I'm wondering if it has something to do with my assumptions about how this command flag is working. What unit are these values supposed to be in? Also is the difference between projdist-avg and projdist-max that avg averages all values (including zeros) and max finds the highest value from the points between min and max? Sorry to get into the nitty gritty, I am just trying to understand all the options so I can use them appropriately.
Thanks, Sara Sims On 7/9/18, 3:15 PM, "freesurfer-boun...@nmr.mgh.harvard.edu on behalf of Bruce Fischl" <freesurfer-boun...@nmr.mgh.harvard.edu on behalf of fis...@nmr.mgh.harvard.edu> wrote: I think it is short for "delta" - how far about the samples are On Mon, 9 Jul 2018, Sims, Sara A wrote: > External Email - Use Caution > > Bruce, > What does "del" mean in the --projdist-avg flag? > > Sara Sims > Graduate Research Fellow > University of Alabama at Birmingham > Department of Psychology > 205-975-4060 > sno...@uab.edu > > On 6/26/18, 2:49 PM, "freesurfer-boun...@nmr.mgh.harvard.edu on behalf of Bruce Fischl" <freesurfer-boun...@nmr.mgh.harvard.edu on behalf of fis...@nmr.mgh.harvard.edu> wrote: > > Hi Sara > check out the help (with --help). For example you could use: > > --projdist-avg min max del : average along normal > > cheers > Bruce > On Tue, 26 Jun > 2018, Sims, Sara A wrote: > > > External Email - Use Caution > > > > Bruce, > > Thanks! So if I set it to say 4mm would it sample from 0-4mm or just from exactly 4mm and ignore things slightly closer to the surface? > > My problem would be somethings could be 2mm or 3mm etc. and it's not exactly the same all the way around the brain. > > > > Sara Sims > > Graduate Research Fellow > > University of Alabama at Birmingham > > Department of Psychology > > 205-975-4060 > > sno...@uab.edu > > > > On 6/26/18, 2:27 PM, "freesurfer-boun...@nmr.mgh.harvard.edu on behalf of Bruce Fischl" <freesurfer-boun...@nmr.mgh.harvard.edu on behalf of fis...@nmr.mgh.harvard.edu> wrote: > > > > Hi Sara > > > > you can use a negative projdist in mri_vol2surf > > > > cheers > > Bruce > > On Tue, 26 Jun 2018, Sims, > > Sara A wrote: > > > > > > > > External Email - Use Caution > > > > > > Hello, > > > > > > I have outputs from FSL probtrackx that I would like to display on Freesurfer surfaces. If I > > > put the volume into freesurfer space how can I get it to sample onto a surface when the > > > values are in white matter and not grey matter? To rephrase, how can I pull data from white > > > matter (just below the grey matter) and display it on a surface? > > > > > > > > > > > > Many thanks, > > > > > > Sara > > > > > > > > > > > > > > > _______________________________________________ > > Freesurfer mailing list > > Freesurfer@nmr.mgh.harvard.edu > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > > > > > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > _______________________________________________ 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 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.