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NCBI C++ ToolKit: include/algo/blast/composition_adjustment/composition_constants.h Source File

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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.

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