#include <motif.hh>
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| BaseCount (int a, int c, int g, int t) |
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| BaseCount (const char *sequence, int len=-1) |
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void | normalize () |
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void | addSequence (const char *sequence, int len) |
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void | addCharacter (char nucleotide, bool subtract=false) |
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void | reverse () |
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static void | init () |
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static int | weight (BaseCount bc1, BaseCount bc2) |
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static double | doubleWeight (BaseCount bc1, BaseCount bc2) |
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static int | gcContentWeight (BaseCount bc1, BaseCount bc2) |
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static int | gcContentClass (double gcContent) |
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static int | gcContentClassWeight (BaseCount bc1, BaseCount bc2) |
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static double | multiNormalKernelWeight (BaseCount bc1, BaseCount bc2) |
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static void | setWeightMatrix (string matrixFileName) |
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static double | phi (double x, double sigma) |
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int | a |
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int | c |
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int | g |
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int | t |
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double | ra |
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double | rc |
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double | rg |
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double | rt |
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static WeighingType | weithType = equalWeights |
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static Matrix< double > | weighingMatrix = 0 |
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The documentation for this class was generated from the following files:
