MultiSequenceAlignment.MultipleAlignmentScoreFunction Method

MultiSequenceAlignmentMultipleAlignmentScoreFunction Method

Calculate alignment score of a set of aligned sequences. The score is the average over all pairs of sequences of their pairwise alignment score.

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

Syntax

C++

Copy

public static float MultipleAlignmentScoreFunction(
	List<ISequence> sequences,
	SimilarityMatrix similarityMatrix,
	int gapOpenPenalty,
	int gapExtensionPenalty
)

Public Shared Function MultipleAlignmentScoreFunction ( 
	sequences As List(Of ISequence),
	similarityMatrix As SimilarityMatrix,
	gapOpenPenalty As Integer,
	gapExtensionPenalty As Integer
) As Single

public:
static float MultipleAlignmentScoreFunction(
	List<ISequence^>^ sequences, 
	SimilarityMatrix^ similarityMatrix, 
	int gapOpenPenalty, 
	int gapExtensionPenalty
)

static member MultipleAlignmentScoreFunction : 
        sequences : List<ISequence> * 
        similarityMatrix : SimilarityMatrix * 
        gapOpenPenalty : int * 
        gapExtensionPenalty : int -> float32

Parameters

sequences: Type: System.Collections.GenericListISequence
a set of aligned sequences
similarityMatrix: Type: Bio.SimilarityMatricesSimilarityMatrix
similarity matrix
gapOpenPenalty: Type: SystemInt32
negative open gap penalty
gapExtensionPenalty: Type: SystemInt32
negative extension gap penalty

Return Value

Type: Single

[Missing <returns> documentation for "M:Bio.Algorithms.Alignment.MultiSequenceAlignment.MultipleAlignmentScoreFunction(System.Collections.Generic.List{Bio.ISequence},Bio.SimilarityMatrices.SimilarityMatrix,System.Int32,System.Int32)"]

Reference

MultiSequenceAlignment Class

Bio.Algorithms.Alignment Namespace