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IMP Reference Guide  develop.d3e3923077,2019/12/11
The Integrative Modeling Platform
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 crosslinks. 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 1590 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 1621 of file pmi/Analysis.py.