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Hi Matt, Should -R do that automatically? On Tue, Mar 23, 2010 at 11:39 AM, Matt Glasser <[log in to unmask]> wrote: > Moving the center of the initial sphere ( -c X Y Z ) closer to the front of > the brain might help. > > Peace, > > Matt. > > -----Original Message----- > From: FSL - FMRIB's Software Library [mailto:[log in to unmask]] On Behalf > Of Xue, Feng > Sent: Monday, March 22, 2010 10:32 PM > To: [log in to unmask] > Subject: Re: [FSL] BET in infants > > Hi, > > Many be you could try draw a mask on the T1 image in fslview then mask > out those regions. But this may means a lot of labor as I did before:( > I wonder if anyone have other good idea? > > On Tue, Mar 23, 2010 at 12:21 AM, Michael Yoong <[log in to unmask]> > wrote: >> Does anyone have any tips on using BET to skull strip T1 weighted scans in >> very young children (under 6 months)? >> >> I have been adjusting the intensity settings and got a reasonable result >> with -R -f 0.7, but there is a persistent small patch of skull remaining > in >> the occipital region of every child under 6 months. I would like to > improve >> on this, as it messes up any co-registration I then go on to do (I also >> would like to get measurements for brain volume). >> >> Are there any other settings that people have found useful to tweak in > this >> situation? >> >> I am also having trouble getting a satisfactory brain extraction on some >> other scans with more severe abnormalities - is there any way to mask out > a >> region so that it is ignored by BET? (A couple of the children have had >> previous neurosurgery for VP shunt insertion and the edges of the surgical >> lesion are not dealt with very well by BET. >> >> Many thanks, >> >> Michael >> > > > > -- > Best Regards > > Xue, Feng Phd. candidate > Major in Developmental Cognitive Neuroscience > > National Key Laboratory of Cognitive Neuroscience and Learning > Beijing Normal University > Beijing, China. 100875 > Tel: +86-13810154455 > web: http://psychbrain.bnu.edu.cn > ============================================== > Welcome to MuDuo JinSheng BBS @ Beijing Normal University > telnet://bbs.mdjs.org > http://bbs.mdjs.org > -- Best Regards Xue, Feng Phd. candidate Major in Developmental Cognitive Neuroscience National Key Laboratory of Cognitive Neuroscience and Learning Beijing Normal University Beijing, China. 100875 Tel: +86-13810154455 web: http://psychbrain.bnu.edu.cn ============================================== Welcome to MuDuo JinSheng BBS @ Beijing Normal University telnet://bbs.mdjs.org http://bbs.mdjs.org