SmithWaterman {SMRUCC.genomics.Analysis.SequenceTools}

.NET clr documentation

SmithWaterman

Description

Smith-Waterman local alignment algorithm.

Design Note: this class implements AminoAcids interface: a simple fix customized to amino acids, since that is all we deal with in this class Supporting both DNA and Aminoacids, will require a more general design.

Declare

            
# namespace SMRUCC.genomics.Analysis.SequenceTools
export class SmithWaterman extends GSW`1 {
   AlignmentScore: double;
   MaxScore: double;
   prevCells: Int32[][];
   query: string;
   score: Double[][];
   subject: string;
   symbol: GenericSymbol`1;
}

        

.NET clr type reference tree

1. this class extends from GSW`1 class: GSW`1
2. use by property member prevCells: Int32[]
3. use by property member score: Double[]
4. use by property member symbol: GenericSymbol`1

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