Hi Joe,
I am new to Phenix and using the phenix.mtriage to get the map-model FSC results. It gives the correct results at the same time I also want to produce the mode-map used for the FSC calculation. Is there an option for this? If not how can I reproduce the same model-map with another phenix command?
at the moment phenix.mtriage does not have an option to output the model-generated map. However, you can get such a map using a different Phenix tool (in the command line). Example: phenix.fmodel model.pdb high_res=3.2 scattering_table=electron where model.pdb is the file with your atomic model, high_res specifies resolution of the map, and scattering_table tells to use electron form factors. This will produce an MTZ file with the Fourier map that is calculated as described in Section 2.1.1. here: https://pubmed.ncbi.nlm.nih.gov/30198894/ Pavel