IMP logo
IMP Reference Guide  2.6.0
The Integrative Modeling Platform
IMP.pmi.analysis.GetModelDensity Class Reference

Compute mean density maps from structures. More...

Inherits object.

Detailed Description

Compute mean density maps from structures.

Keeps a dictionary of density maps, keys are in the custom ranges. When you call add_subunits_density, it adds particle coordinates to the existing density maps.

This class is only available in Python.

Definition at line 976 of file pmi/

Public Member Functions

def __init__
 Constructor. More...
def add_subunits_density
 Add a frame to the densities. More...
def get_density
 Get the current density for some component name. More...

Constructor & Destructor Documentation

def IMP.pmi.analysis.GetModelDensity.__init__ (   self,
  representation = None,
  resolution = 20.0,
  voxel = 5.0 


custom_rangesRequired. It's a dictionary, keys are the density component names, values are selection tuples e.g. {'kin28':[['kin28',1,-1]], 'density_name_1' :[('ccl1')], 'density_name_2' :[(1,142,'tfb3d1'), (143,700,'tfb3d2')],
representationPMI representation, for doing selections. Not needed if you only pass hierarchies
resolutionThe MRC resolution of the output map (in Angstrom unit)
voxelThe voxel size for the output map (lower is slower)

Definition at line 988 of file pmi/

Member Function Documentation

def IMP.pmi.analysis.GetModelDensity.add_subunits_density (   self,
  hierarchy = None 

Add a frame to the densities.

hierarchyOptionally read the hierarchy from somewhere. If not passed, will just read the representation.

Definition at line 1005 of file pmi/

def IMP.pmi.analysis.GetModelDensity.get_density (   self,

Get the current density for some component name.

Definition at line 1083 of file pmi/

The documentation for this class was generated from the following file: