ClusterBuilder.BuildClusters Method (List(MatchExtension), Boolean)

ClusterBuilderBuildClusters Method (ListMatchExtension, Boolean)

Get the Cluster from given inputs of matches. Steps are as follows: 1. Sort MUMs based on query sequence start (if sortedByQuerySequenceIndex is false) 2. Removing overlapping MUMs (in both sequences) and MUMs with same diagonal offset (usually adjacent) 3. Check for separation between two MUMs 4. Check the diagonal separation 5. If MUMs passes above conditions merge them in one cluster. 6. Sort MUMs using cluster id 7. Process clusters (Joining clusters)

Namespace: Bio.Algorithms.Alignment
Assembly: Bio.Core (in Bio.Core.dll) Version: 2.0.0.1 (2.0.0.1)

Syntax

C++

Copy

public List<Cluster> BuildClusters(
	List<MatchExtension> matchExtensions,
	bool sortedByQuerySequenceIndex
)

Public Function BuildClusters ( 
	matchExtensions As List(Of MatchExtension),
	sortedByQuerySequenceIndex As Boolean
) As List(Of Cluster)

public:
virtual List<Cluster^>^ BuildClusters(
	List<MatchExtension^>^ matchExtensions, 
	bool sortedByQuerySequenceIndex
) sealed

abstract BuildClusters : 
        matchExtensions : List<MatchExtension> * 
        sortedByQuerySequenceIndex : bool -> List<Cluster> 
override BuildClusters : 
        matchExtensions : List<MatchExtension> * 
        sortedByQuerySequenceIndex : bool -> List<Cluster>

Parameters

matchExtensions: Type: System.Collections.GenericListMatchExtension
List of maximum unique matches
sortedByQuerySequenceIndex: Type: SystemBoolean
Flag to indicate whether the match extensions are already started by query sequence index or not.

Return Value

Type: ListCluster
List of Cluster

Implements

IClusterBuilderBuildClusters(ListMatchExtension, Boolean)

Reference

ClusterBuilder Class

BuildClusters Overload

Bio.Algorithms.Alignment Namespace