[Chimera-users] Volume level rms option
olibclarke at gmail.com
Thu Jul 30 17:02:15 PDT 2015
Fantastic, thanks Tom!
On Thu, Jul 30, 2015 at 7:28 PM, Tom Goddard <goddard at sonic.net> wrote:
> Ok I added volume command rmsLevel and sdLevel options that are just like
> the level option only with units in RMS or standard deviation. The RMS and
> standard deviation are for the shown region of the map at the shown
> subsample step. In tonight’s daily build.
> > On Jul 30, 2015, at 9:10 AM, Oliver Clarke wrote:
> > Hi all,
> > Just a minor usability suggestion - I was wondering if it would be
> possible to add a flag to the ‘volume level’ command that allows the user
> to directly set the map threshold to x*RMS or x*SD?
> > E.g. volume level rms 5 to set to 5xRMS of the map, using the values
> reported by measure mapstats? At present it is possible to normalize the
> map to rms, which is very handy, but it would be also convenient (for the
> purposes of reporting absolute threshold levels in figure legends etc) to
> be able to set the level as 5*rms but still check the absolute e-/Å^3
> contour that this corresponds to.
> > Also on a completely different matter, is there any way to access the
> “Zone” feature of Volume viewer from the command line? I would like to
> write an alias that places a dummy atom at the CoFR and displays a
> spherical zone of the selected map (without generating a new map using vop
> zone), but I can’t find the corresponding command line function.
> > Cheers,
> > Oliver.
> > _______________________________________________
> > Chimera-users mailing list
> > Chimera-users at cgl.ucsf.edu
> > http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-users
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