fn() calculatePeriodicityCalculate word periodicity (indicator for overlaps)
Calculate word periodicity (indicator for overlaps)
Defined in | <seqan/alignment_free.h> |
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Signature |
void calculatePeriodicity(periodicity, word1, word2);
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Parameters
periodicity
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String of int values giving the periodicity (overlap indicator) of word1 and word2. |
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[
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int] word1 String, usually of Dna characters. |
[
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int] word2 String, usually of Dna characters. |
Detailed Description
Calculate word periodicity (indicator for overlaps) for two words.
Examples
Calculate the periodicity of two words (At which positions can they overlap?)
using namespace seqan2;
DnaString word1 = "ATATA";
DnaString word2 = "TATAT";
String<int> periodicity;
calculatePeriodicity(periodicity, word1, word2);
for(unsigned i = 0; i < length(periodicity); ++i) // Print the periodicity
std::cout << periodicity[i] << "\t";
// periodocity[0] = 1:
// i = 01234
// word1 = ATATA
// word2 = -TATAT
// periodocity[1] = 3:
// i = 01234
// word1 = ATATA
// word2 = ---TATAT
Data Races
If not stated otherwise, concurrent invocation is not guaranteed to be thread-safe.