Hi Ian, Thanks a lot for your answers. They are very informative. I am afraid that I was looking in the wrong direction to figure out what I seek. So, I am reforming my question; I am trying to figure out whether the relation between the RMSD and the e/A^3 is linear or not. Therefore, I was looking for how does COOT calculate the RMSD, hoping to find the relation between RMSD and e/A^3. If you could refer to me a reference that is related to this, it will be great. One more question, you mentioned that " it shouldn't be called sigma because it's not an uncertainty ", so when we say, for example, this map is contoured at 3 sigma, this is a wrong statement?
Cheers, On Thu, Apr 19, 2018 at 2:57 PM, Ian Tickle <[email protected]> wrote: > > Hi, first maps are produced by Refmac, not Coot, and second it shouldn't > be called sigma because it's not an uncertainty, it's a root-mean-square > deviation from the mean. The equation for the RMSD can be found in any > basic text on statistics, e.g. just type 'RMSD' in Wikipedia. > > Cheers > > -- Ian > > > On 19 April 2018 at 13:20, Mohamed Ibrahim <[email protected]> > wrote: > >> Dear COOT users, >> >> Do you know how to extract the equations that COOT uses for generating >> the maps and calculating the sigma values? >> >> Best regards, >> Mohamed >> >> -- >> >> -- >> *----------------------------------* >> *Mohamed Ibrahim * >> >> *Humboldt University * >> *Berlin, Germany * >> >> *Tel: +49 30 209347931 * >> > > -- -- *----------------------------------* *Mohamed Ibrahim * *Humboldt University * *Berlin, Germany * *Tel: +49 30 209347931 *
