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.

Note

This class is only available in Python.

Definition at line 976 of file pmi/Analysis.py.

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,
			custom_ranges,
			representation = None,
			resolution = 20.0,
			voxel = 5.0
	)

Constructor.

Parameters

custom_ranges	Required. 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')],
representation	PMI representation, for doing selections. Not needed if you only pass hierarchies
resolution	The MRC resolution of the output map (in Angstrom unit)
voxel	The voxel size for the output map (lower is slower)

Definition at line 988 of file pmi/Analysis.py.

Member Function Documentation

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

Add a frame to the densities.

Parameters

hierarchy

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

Definition at line 1005 of file pmi/Analysis.py.

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

Get the current density for some component name.

Definition at line 1083 of file pmi/Analysis.py.

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

• pmi/Analysis.py