IMP.pmi1.analysis.Clustering Class Reference

A class to cluster structures. More...

Inherits object.

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 194 of file pmi1/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.pmi1.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 199 of file pmi1/Analysis.py.

Member Function Documentation

def IMP.pmi1.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 264 of file pmi1/Analysis.py.

def IMP.pmi1.analysis.Clustering.fill	(		self,
			frame,
			Coords
	)

Add coordinates for a single model.

Definition at line 221 of file pmi1/Analysis.py.

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

• pmi1/Analysis.py