#include <AlignmentClustering.hh>

Inheritance diagram for protocols::comparative_modeling::AlignmentCluster:

Public Member Functions
	AlignmentCluster (core::sequence::SequenceAlignment &aln_in)
	@detail Creates a AlignmentCluster More...

	~AlignmentCluster () override
	@detail Deletes an AlignmentCluster object More...

void	add_aln (core::sequence::SequenceAlignment &aln_in)
	@detail add alignment More...

core::sequence::SequenceAlignment	get_aln (core::Size index)
	@detail get aln More...

core::Real	size ()
	@detail get aln More...

core::sequence::SequenceAlignment	get_clusterCenter ()
	@detail get cluster center – assumes lowest energy point More...

void	output (std::ostream &alignment_out)
	@detail outputs cluster to file More...

void	merge (AlignmentClusterOP cluster_in)
	@detail merges two clusters making sure the alignments are unique More...

core::Real	overlap (AlignmentClusterOP cluster_in)
	@detail gets the percent of alignments in the input cluster that are in the current cluster More...

Private Attributes
utility::vector1< core::sequence::SequenceAlignment >	alns

Constructor & Destructor Documentation

◆ AlignmentCluster()

protocols::comparative_modeling::AlignmentCluster::AlignmentCluster ( core::sequence::SequenceAlignment & aln_in )

@detail Creates a AlignmentCluster

◆ ~AlignmentCluster()

protocols::comparative_modeling::AlignmentCluster::~AlignmentCluster ( )

override

@detail Deletes an AlignmentCluster object

Member Function Documentation

◆ add_aln()

void protocols::comparative_modeling::AlignmentCluster::add_aln ( core::sequence::SequenceAlignment & aln_in )

@detail add alignment

◆ get_aln()

SequenceAlignment protocols::comparative_modeling::AlignmentCluster::get_aln ( core::Size index )

@detail get aln

◆ get_clusterCenter()

SequenceAlignment protocols::comparative_modeling::AlignmentCluster::get_clusterCenter ( )

@detail get cluster center – assumes lowest energy point

◆ merge()

void protocols::comparative_modeling::AlignmentCluster::merge ( AlignmentClusterOP cluster_in )

@detail merges two clusters making sure the alignments are unique

References core::sequence::SequenceAlignment::sequence().

◆ output()

void protocols::comparative_modeling::AlignmentCluster::output ( std::ostream & alignment_out )

@detail outputs cluster to file

References protocols::comparative_modeling::tr().

◆ overlap()

Real protocols::comparative_modeling::AlignmentCluster::overlap ( AlignmentClusterOP cluster_in )

@detail gets the percent of alignments in the input cluster that are in the current cluster

◆ size()

Real protocols::comparative_modeling::AlignmentCluster::size ( )

@detail get aln

Member Data Documentation

◆ alns

utility::vector1<core::sequence::SequenceAlignment> protocols::comparative_modeling::AlignmentCluster::alns

private

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

src/protocols/comparative_modeling/AlignmentClustering.hh
src/protocols/comparative_modeling/AlignmentClustering.cc

Public Member Functions

Private Attributes