How is n-gram different from k-mer? Both seem to be (n or k) length substrings of a larger string. Are these just terms common with different practitioners? viz. Computer Scientists and Bioinformaticians?

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    $\begingroup$ The wiki for "n-gram" states at the top: "For applications in computational genomics, see k-mer." So yes, I believe they're just in different domains. $\endgroup$ Feb 17 '16 at 19:35
  • $\begingroup$ Oh... Thanks.. I missed the fine print :-) $\endgroup$
    – Lord Loh.
    Feb 17 '16 at 19:58
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    $\begingroup$ And to add - "k-shingle" also means the same thing. :-O. NLP folks i guess. $\endgroup$
    – Lord Loh.
    Feb 17 '16 at 21:18

Yes, they mean the same thing. A n-gram is a sequence of n consecutive things (words, letters, whatever). A k-mer is a sequence of k consecutive things (DNA basepairs). The phrase k-mer is more common in computational genomics.

See https://en.wikipedia.org/wiki/N-gram and https://en.wikipedia.org/wiki/K-mer for definitions.


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