IMP.pmi.analysis.Clustering Class Reference

A class to cluster structures. More...

Detailed Description

A class to cluster structures.

Uses scipy's cdist function to compute distance matrices and sklearn's kmeans clustering module.

Note

This class is only available in Python.

Definition at line 183 of file pmi/Analysis.py.

Public Member Functions
def	__init__
	Constructor. More...
def	do_cluster
	Run K-means clustering. More...
def	fill
	Add coordinates for a single model. More...

Constructor & Destructor Documentation

def IMP.pmi.analysis.Clustering.__init__	(		self,
			rmsd_weights = None
	)

Constructor.

Parameters

rmsd_weights

Flat list of weights for each particle (if they're coarse)

Definition at line 188 of file pmi/Analysis.py.

Member Function Documentation

def IMP.pmi.analysis.Clustering.do_cluster	(		self,
			number_of_clusters,
			seed = None
	)

Run K-means clustering.

Parameters

number_of_clusters	Num means
seed	the random seed

Definition at line 252 of file pmi/Analysis.py.

def IMP.pmi.analysis.Clustering.fill	(		self,
			frame,
			Coords
	)

Add coordinates for a single model.

Definition at line 209 of file pmi/Analysis.py.

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

• pmi/Analysis.py