[phenixbb] Filtering ordered solvent molecules based on secondary map

Andrew T. Torelli att29 at cornell.edu
Tue Jan 4 13:27:37 PST 2011

Hello all,

                I'm looking for a description of how the "secondary_map_and_map_cc_filter" parameter operates.  The default is set to be a 2mFobs-DFmodel, and I assume it's calculating a correlation coefficient as the basis for filtering waters that are present in the mFobs-DFmodel maps (i.e. primary map) but not in the 2mFo-DFc map.  However, I'd like to confirm my assumption is true and also learn whether the cutoff value for whether or not a putative water molecule gets culled can be changed.  I haven't found the information in the online documentation or the Phenixbb archives.

-Andy Torelli
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