protocols::comparative_modeling::AlignmentCluster Class Reference

#include <AlignmentClustering.hh>

Inheritance diagram for protocols::comparative_modeling::AlignmentCluster:

Collaboration diagram for protocols::comparative_modeling::AlignmentCluster:

Public Member Functions
	AlignmentCluster (SequenceAlignment &aln_in)
	Creates a AlignmentCluster More...
virtual	~AlignmentCluster ()
	Deletes an AlignmentCluster object More...
void	add_aln (SequenceAlignment &aln_in)
	add alignment More...
SequenceAlignment	get_aln (Size index)
	get aln More...
Real	size ()
	get aln More...
SequenceAlignment	get_clusterCenter ()
	get cluster center – assumes lowest energy point More...
void	output (std::ostream &alignment_out)
	outputs cluster to file More...
void	merge (AlignmentClusterOP cluster_in)
	merges two clusters making sure the alignments are unique More...
Real	overlap (AlignmentClusterOP cluster_in)
	gets the percent of alignments in the input cluster that are in the current cluster More...

Private Attributes
vector1< SequenceAlignment >	alns

Detailed Description

Definition at line 51 of file AlignmentClustering.hh.

Constructor & Destructor Documentation

protocols::comparative_modeling::AlignmentCluster::AlignmentCluster

(

SequenceAlignment &

aln_in)

Creates a AlignmentCluster

Definition at line 87 of file AlignmentClustering.cc.

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

virtual

Deletes an AlignmentCluster object

Definition at line 93 of file AlignmentClustering.cc.

References core::pose::Pose::clear().

Member Function Documentation

void protocols::comparative_modeling::AlignmentCluster::add_aln

(

SequenceAlignment &

aln_in)

add alignment

Definition at line 99 of file AlignmentClustering.cc.

SequenceAlignment protocols::comparative_modeling::AlignmentCluster::get_aln

(

Size

index)

get aln

Definition at line 105 of file AlignmentClustering.cc.

SequenceAlignment protocols::comparative_modeling::AlignmentCluster::get_clusterCenter

(

)

get cluster center – assumes lowest energy point

Definition at line 118 of file AlignmentClustering.cc.

void protocols::comparative_modeling::AlignmentCluster::merge

(

AlignmentClusterOP

cluster_in)

merges two clusters making sure the alignments are unique

Definition at line 135 of file AlignmentClustering.cc.

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

void protocols::comparative_modeling::AlignmentCluster::output

(

std::ostream &

alignment_out)

outputs cluster to file

Definition at line 124 of file AlignmentClustering.cc.

References core::sequence::SequenceAlignment::printGrishinFormat(), and tr().

Real protocols::comparative_modeling::AlignmentCluster::overlap

(

AlignmentClusterOP

cluster_in)

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

Definition at line 152 of file AlignmentClustering.cc.

Real protocols::comparative_modeling::AlignmentCluster::size

(

)

get aln

Definition at line 111 of file AlignmentClustering.cc.

Member Data Documentation

vector1<SequenceAlignment> protocols::comparative_modeling::AlignmentCluster::alns

private

Definition at line 53 of file AlignmentClustering.hh.

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

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