Class Specialization
D2Star AFScore
D2Star computes the inner product of the standardised kmer count vectors

AFScore

D2Star AFScore

AFScore<D2Star>
Include Headers
seqan/alignment_free.h
Remarks
D2Star can be used for alignment-free sequence comparison, this version calculates the background model on the concatenation of both sequences
Specialization of
AFScore
Data Members

bgModelOrder | Order of the background model
kmerSize | Size of the kmers
outputFile | When specified, all kmerWeights will be written to this file, for every sequence, and for every sequence comparison

Member Functions

AFScore | Constructor

Functions

alignmentFreeComparison | Computes the pairwise similarity scores for a set of sequences (AFScore)

SeqAn - Sequence Analysis Library - www.seqan.de

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