Hi William, The way I go about the sigma level contouring in Chimera, though it's somewhat ham-fisted but perhaps less complicated than Tom's suggestion, is to contour the region of interest at the desired sigma level in Coot or O and then play with the contouring in Chimera until both maps look as similar as possible (the maps rarely look identical for technical differences in the contouring techniques, I think). It works. Cheers, Boaz Boaz Shaanan, Ph.D. Dept. of Life Sciences Ben-Gurion University of the Negev Beer-Sheva 84105 Israel Phone: 972-8-647-2220 ; Fax: 646-1710 Skype: boaz.shaanan
Hi Boaz, That approach works too. Getting the exact threshold isn't really so hard using my method though. If using menu entry Measure Mean, SD, RMS reports RMS as 5.3 and I want the contour level to be 2 sigma, then I just type in 10.6 (= 2 * 5.3) in the volume dialog threshold level entry field and press the Enter key. Tom
Hi William,
The way I go about the sigma level contouring in Chimera, though it's somewhat ham-fisted but perhaps less complicated than Tom's suggestion, is to contour the region of interest at the desired sigma level in Coot or O and then play with the contouring in Chimera until both maps look as similar as possible (the maps rarely look identical for technical differences in the contouring techniques, I think). It works.
Cheers,
Boaz
participants (2)
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Boaz Shaanan -
Tom Goddard