Spec
D2 AFScoreD2 computes the inner product of the kmer count vectors.
D2 computes the inner product of the kmer count vectors.
| Extends | AFScore |
|---|---|
| All Extended | AFScore |
| Defined in | <seqan/alignment_free.h> |
| Signature |
template <>
struct AFScore<D2>;
|
Member Function Overview
-
AFScore::AFScore(kmerSize, verbose);Constructor
Member Variable Overview
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unsigned D2AFScore::kmerSizeSize of the kmers. -
bool D2AFScore::verbosetrue to enable verbose debug output.
Detailed Description
To be used for alignment free comparison.
References
Lippert RA, et al. Distributional regimes for the number of k-word matches between two random sequences. Proc. Natl Acad. Sci. USA 2002.
See Also
Member Functions Detail
AFScore::AFScore(kmerSize, verbose);
Constructor
Parameters
verbose
|
This option will report progress to standard output (bool</tt). |
|---|---|
kmerSize
|
Size of kmer (unsigned). |
Data Races
Thread safety unknown!
See Also
Member Variables Detail
unsigned D2AFScore::kmerSize
Size of the kmers.
bool D2AFScore::verbose
true to enable verbose debug output.