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Showing content from http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/struct__dp_8h_source.html below:

NCBI C++ ToolKit: include/algo/structure/struct_dp/struct_dp.h Source File

44 #define STRUCT_DP_FOUND_ALIGNMENT 1 45 #define STRUCT_DP_NO_ALIGNMENT 2 46 #define STRUCT_DP_PARAMETER_ERROR 3 47 #define STRUCT_DP_ALGORITHM_ERROR 4 48 #define STRUCT_DP_OKAY 5 92  unsigned int

nLoops,

const unsigned int

*loopLengths,

93  double

percentile,

unsigned int

extension,

unsigned int

cutoff);

118  unsigned int

queryFrom,

119  unsigned int

queryTo,

129  unsigned int

queryFrom,

130  unsigned int

queryTo,

150  unsigned int

queryFrom,

151  unsigned int

queryTo,

153  unsigned int

maxAlignments

166  unsigned int

queryFrom,

167  unsigned int

queryTo,

178  unsigned int

queryFrom,

179  unsigned int

queryTo,

190  unsigned int

queryFrom,

191  unsigned int

queryTo,

193  unsigned int

maxAlignments

#define NCBI_STRUCTDP_EXPORT

unsigned int

A callback function used to compare two keys in a database.

unsigned int * blockPositions

unsigned int * freezeBlocks

unsigned int * blockPositions

unsigned int * blockSizes

DP_AlignmentResult * alignments

int DP_LocalBlockAlign(const DP_BlockInfo *blocks, DP_BlockScoreFunction BlockScore, unsigned int queryFrom, unsigned int queryTo, DP_AlignmentResult **alignment)

int DP_MultipleLocalBlockAlignGeneric(const DP_BlockInfo *blocks, DP_BlockScoreFunction BlockScore, DP_LoopPenaltyFunction LoopScore, unsigned int queryFrom, unsigned int queryTo, DP_MultipleAlignmentResults **alignments, unsigned int maxAlignments)

void DP_DestroyBlockInfo(DP_BlockInfo *blocks)

unsigned int DP_CalculateMaxLoopLength(unsigned int nLoops, const unsigned int *loopLengths, double percentile, unsigned int extension, unsigned int cutoff)

int DP_GlobalBlockAlignGeneric(const DP_BlockInfo *blocks, DP_BlockScoreFunction BlockScore, DP_LoopPenaltyFunction LoopScore, unsigned int queryFrom, unsigned int queryTo, DP_AlignmentResult **alignment)

int DP_GlobalBlockAlign(const DP_BlockInfo *blocks, DP_BlockScoreFunction BlockScore, unsigned int queryFrom, unsigned int queryTo, DP_AlignmentResult **alignment)

unsigned int(* DP_LoopPenaltyFunction)(unsigned int loopNumber, unsigned int loopLength)

static const unsigned int DP_POSITIVE_INFINITY

static const int DP_NEGATIVE_INFINITY

int(* DP_BlockScoreFunction)(unsigned int block, unsigned int queryPos)

static const unsigned int DP_UNFROZEN_BLOCK

void DP_DestroyAlignmentResult(DP_AlignmentResult *alignment)

void DP_DestroyMultipleAlignmentResults(DP_MultipleAlignmentResults *alignments)

int DP_LocalBlockAlignGeneric(const DP_BlockInfo *blocks, DP_BlockScoreFunction BlockScore, DP_LoopPenaltyFunction LoopScore, unsigned int queryFrom, unsigned int queryTo, DP_AlignmentResult **alignment)

DP_BlockInfo * DP_CreateBlockInfo(unsigned int nBlocks)

int DP_MultipleLocalBlockAlign(const DP_BlockInfo *blocks, DP_BlockScoreFunction BlockScore, unsigned int queryFrom, unsigned int queryTo, DP_MultipleAlignmentResults **alignments, unsigned int maxAlignments)

static DP_BlockInfo * blocks

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