IMP.pmi.analysis Namespace Reference

Tools for clustering and cluster analysis. More...

Detailed Description

Tools for clustering and cluster analysis.

Classes
class	Alignment
	Performs alignment and RMSD calculation for two sets of coordinates. More...
class	Clustering
	A class to cluster structures. More...
class	CrossLinkTable
	Visualization of cross-links. More...
class	GetModelDensity
	Compute mean density maps from structures. More...
class	Precision
	A class to evaluate the precision of an ensemble. More...
class	RMSD
	Compute the RMSD (without alignment) taking into account the copy ambiguity. More...

Functions
def	get_particles_at_resolution_one
	Get particles at res 1, or any beads, based on the name. More...
def	get_particles_at_resolution_ten
	Get particles at res 10, or any beads, based on the name. More...

Function Documentation

def IMP.pmi.analysis.get_particles_at_resolution_one

(

prot

)

Get particles at res 1, or any beads, based on the name.

No Representation is needed. This is mainly used when the hierarchy is read from an RMF file.

Returns

a dictionary of component names and their particles

Note

If the root node is named "System" or is a "State", do proper selection.

This function is only available in Python.

Definition at line 1596 of file pmi/Analysis.py.

def IMP.pmi.analysis.get_particles_at_resolution_ten

(

prot

)

Get particles at res 10, or any beads, based on the name.

No Representation is needed. This is mainly used when the hierarchy is read from an RMF file.

Returns

a dictionary of component names and their particles

Note

If the root node is named "System" or is a "State", do proper selection.

This function is only available in Python.

Definition at line 1614 of file pmi/Analysis.py.