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33 #ifndef __COMPOSITION_CONSTANTS__
34 #define __COMPOSITION_CONSTANTS__
43 #define COMPO_SCORE_MIN INT2_MIN
46 #define COMPO_NUM_TRUE_AA 20
51 #define COMPO_LARGEST_ALPHABET 28
ECompoAdjustModes
An collection of constants that specify all permissible modes of composition adjustment.
@ eCompositionBasedStats
Composition-based statistics as in NAR 29:2994-3005, 2001.
@ eCompoForceFullMatrixAdjust
Composition-based score adjustment as in Bioinformatics 21:902-911, 2005, unconditionally.
@ eNoCompositionBasedStats
Don't use composition based statistics.
@ eCompositionMatrixAdjust
Composition-based score adjustment as in Bioinformatics 21:902-911, 2005, conditioned on sequence pro...
EMatrixAdjustRule
An collection of constants that specify all rules that may be used to generate a compositionally adju...
@ eRelEntropyOldMatrixOldContext
@ eRelEntropyOldMatrixNewContext
@ eUserSpecifiedRelEntropy
@ eUnconstrainedRelEntropy
Type and macro definitions from C toolkit that are not defined in C++ toolkit.