SmithWaterman (BioFSharp) | BioFSharp

SmithWaterman Type

Namespace: BioFSharp.Algorithm
Assembly: BioFSharp.dll
Parent Module: Local
Base Type: obj

Local pairwise alignment algorithm (AffineGaps)

Constructors

Constructor	Description
`SmithWaterman()` Full Usage: `SmithWaterman()` Returns: `SmithWaterman`	Returns: `SmithWaterman`

Static members

Static member	Description
`SmithWaterman.align (fstSeq, sndSeq, costs)` Full Usage: `SmithWaterman.align (fstSeq, sndSeq, costs)` Parameters: fstSeq : `BioArray<Nucleotide>` sndSeq : `BioArray<Nucleotide>` costs : `Costs<Nucleotide>` Returns: `Alignment<Nucleotide list, LocalAlignmentInfo>`	Returns the optimal local alignment of two Nucleotide BioArrays fstSeq : `BioArray<Nucleotide>` sndSeq : `BioArray<Nucleotide>` costs : `Costs<Nucleotide>` Returns: `Alignment<Nucleotide list, LocalAlignmentInfo>`
`SmithWaterman.align (fstSeq, sndSeq, costs)` Full Usage: `SmithWaterman.align (fstSeq, sndSeq, costs)` Parameters: fstSeq : `BioArray<AminoAcidSymbol>` sndSeq : `BioArray<AminoAcidSymbol>` costs : `Costs<AminoAcidSymbol>` Returns: `Alignment<AminoAcidSymbol list, LocalAlignmentInfo>`	Returns the optimal local alignment of two AminoAcidSymbol BioArrays fstSeq : `BioArray<AminoAcidSymbol>` sndSeq : `BioArray<AminoAcidSymbol>` costs : `Costs<AminoAcidSymbol>` Returns: `Alignment<AminoAcidSymbol list, LocalAlignmentInfo>`
`SmithWaterman.align (fstSeq, sndSeq, costs)` Full Usage: `SmithWaterman.align (fstSeq, sndSeq, costs)` Parameters: fstSeq : `BioArray<AminoAcid>` sndSeq : `BioArray<AminoAcid>` costs : `Costs<AminoAcid>` Returns: `Alignment<AminoAcid list, LocalAlignmentInfo>`	Returns the optimal local alignment of two AminoAcid BioArrays fstSeq : `BioArray<AminoAcid>` sndSeq : `BioArray<AminoAcid>` costs : `Costs<AminoAcid>` Returns: `Alignment<AminoAcid list, LocalAlignmentInfo>`
`SmithWaterman.align (fstSeq, sndSeq, costs, gapValue)` Full Usage: `SmithWaterman.align (fstSeq, sndSeq, costs, gapValue)` Parameters: fstSeq : `'A[]` sndSeq : `'A[]` costs : `Costs<'A>` gapValue : `'A` Returns: `Alignment<'A list, LocalAlignmentInfo>`	Returns the optimal local alignment of two arrays of generic values fstSeq : `'A[]` sndSeq : `'A[]` costs : `Costs<'A>` gapValue : `'A` Returns: `Alignment<'A list, LocalAlignmentInfo>`
`SmithWaterman.alignOption (fstSeq, sndSeq, costs)` Full Usage: `SmithWaterman.alignOption (fstSeq, sndSeq, costs)` Parameters: fstSeq : `'A[]` sndSeq : `'A[]` costs : `Costs<'A>` Returns: `Alignment<'A option list, LocalAlignmentInfo>`	Returns the optimal local alignment of two arrays of generic values fstSeq : `'A[]` sndSeq : `'A[]` costs : `Costs<'A>` Returns: `Alignment<'A option list, LocalAlignmentInfo>`