IMP.pmi.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.

Parameters

rmsd_weights

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

Note

This class is only available in Python.

Definition at line 180 of file pmi/Analysis.py.

Public Member Functions
def	do_cluster
	Run K-means clustering. More...
def	fill
	fill stores coordinates of a model into a dictionary all_coords, containing coordinates for all models. More...

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 250 of file pmi/Analysis.py.

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

fill stores coordinates of a model into a dictionary all_coords, containing coordinates for all models.

Definition at line 204 of file pmi/Analysis.py.

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

• pmi/Analysis.py