Package csb :: Package statistics :: Module mixtures :: Class SegmentMixture

Class SegmentMixture

          object --+        
                   |        
     GaussianMixture --+    
                       |    
AbstractStructureMixture --+
                           |
                          SegmentMixture

Gaussian mixture model for protein structure ensembles using a set of segments

If X is the coordinate array of a protein structure ensemble which can be decomposed into 2 rigid segments, the segmentation will be found by:

>>> mixture = SegmentMixture(X, 2)

The segment membership of each atom is given by:

>>> mixture.membership
array([0, 0, 0, ..., 1, 1, 1])

Nested Classes
Inherited from `AbstractStructureMixture`: `__metaclass__`

Instance Methods

estimate_T(self)
Estimate superpositions

source code

estimate_means(self)
Update means from current model and samples

source code

Inherited from AbstractStructureMixture: __init__, datapoint, m_step

Inherited from GaussianMixture: anneal, del_cache, e_step, em, estimate_scales, increment_K, overlap, randomize_means, randomize_scales

Inherited from object: __delattr__, __format__, __getattribute__, __hash__, __new__, __reduce__, __reduce_ex__, __repr__, __setattr__, __sizeof__, __str__, __subclasshook__

Class Methods
Inherited from `GaussianMixture`: `new`, `series`

Class Variables
	__abstractmethods__ = `frozenset([])`
Inherited from `GaussianMixture`: `ALPHA_SIGMA`, `BETA_SIGMA`, `MIN_SIGMA`, `use_cache`

Properties

Inherited from AbstractStructureMixture: R, t

Inherited from GaussianMixture: BIC, K, M, N, delta, dimension, log_likelihood, log_likelihood_reduced, means, membership, scales, sigma, w

Inherited from object: __class__

Method Details

estimate_T(self)

source code

Estimate superpositions

Overrides: AbstractStructureMixture.estimate_T: (inherited documentation)

estimate_means(self)

source code

Update means from current model and samples

Overrides: GaussianMixture.estimate_means: (inherited documentation)