On Mon, Jan 21, 2013 at 6:21 AM, Clemens Vonrhein <vonrh...@globalphasing.com> wrote: > Just for the record: the map-coefficients written by BUSTER > (amplitudes 2FOFCWT and FOFCWT in the final 'refine.mtz' file) are on > the same scale as the model (amplitude FC) ie. on approximate absolute > scale.
For what it's worth: Pavel says the same is true of maps output by Phenix, "in theory", and in the several cases that I checked this appears to be true. We still have no idea what's going on in this particular case, but it does appear to be specific to these data (and another user's). > As far as we can tell, Coot uses the actual map-values (e/A^3) as a > 'score' in those 'density fit' graphs - is that right? So it is not > something with a known range (like a real-space correlation value from > -1 to +1) - especially not if the maps are sometimes on roughly > absolute scale and sometimes they aren't. This is consistent with what I saw too; multiplying the 2FOFCWT amplitudes by an arbitrary scale factor gave very different results in the density fit graph (but the mesh, of course, remains the same). -Nat
