MUMmerAligner.Align Method (ISequence, IEnumerable(ISequence))

MUMmerAlignerAlign Method (ISequence, IEnumerableISequence)

Align aligns the reference sequence with query sequences using the affine gap model (gap open and gap extension penalties) and returns the best alignment found.

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

Syntax

C++

Copy

public IList<IPairwiseSequenceAlignment> Align(
	ISequence referenceSequence,
	IEnumerable<ISequence> querySequenceList
)

Public Function Align ( 
	referenceSequence As ISequence,
	querySequenceList As IEnumerable(Of ISequence)
) As IList(Of IPairwiseSequenceAlignment)

public:
IList<IPairwiseSequenceAlignment^>^ Align(
	ISequence^ referenceSequence, 
	IEnumerable<ISequence^>^ querySequenceList
)

member Align : 
        referenceSequence : ISequence * 
        querySequenceList : IEnumerable<ISequence> -> IList<IPairwiseSequenceAlignment>

Parameters

referenceSequence: Type: BioISequence
Reference sequence.
querySequenceList: Type: System.Collections.GenericIEnumerableISequence
List of query sequence.

Return Value

Type: IListIPairwiseSequenceAlignment
A list of sequence alignments.

Reference

MUMmerAligner Class

Align Overload

Bio.Algorithms.MUMmer Namespace