SmithWaterman

Full name SMRUCC.genomics.Analysis.SequenceTools.SequencePatterns.SmithWaterman Assembly SMRUCC.genomics.Analysis.SequenceTools.SequencePatterns.MotifScanner Members 1

01 Syntax

SMRUCC.genomics.Analysis.SequenceTools.SequencePatterns.SmithWaterman

02 Methods

Name	Overloads	Summary
MakeAlignment	1	Make smith-waterman alignment between two motif PWM data

03 Members

method MakeAlignment #

MakeAlignment(IEnumerable(Of Residue), IEnumerable(Of Residue), Double, Int32, Int32, Boolean)

Make smith-waterman alignment between two motif PWM data

Parameters

Name	Type	Description
`pwm1`	`IEnumerable(Of Residue)`	the query motif input
`pwm2`	`IEnumerable(Of Residue)`	the subject motif input
`cutoff`	`Double`	-
`minW`	`Int32`	-
`top`	`Int32`	-