Class
AlignmentStatsStatistics about a tabular alignment.
Statistics about a tabular alignment.
| Defined in | <seqan/align.h> |
|---|---|
| Signature |
struct AlignmentStats;
|
Member Function Overview
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AlignmentStats::AlignmentStats();Constructor
Interface Function Overview
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void clear(stats);Resets all members to 0.
Member Variable Overview
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float AlignmentStats::alignmentIdentityThe resulting alignment percent identity (match). -
unsigned AlignmentStats::alignmentLengthLength of the aligned region -
int AlignmentStats::alignmentScoreThe resulting alignment score. -
float AlignmentStats::alignmentSimilarityThe resulting alignment percent similarity (positive). -
unsigned AlignmentStats::numDeletionsNumber of gaps in query relative to reference. -
unsigned AlignmentStats::numGapExtensionsNumber of gap extension events. -
unsigned AlignmentStats::numGapOpensNumber of gap open events. -
unsigned AlignmentStats::numGapsNumber of gap characters (sum of numGapOpens and numGapExtensions) -
unsigned AlignmentStats::numInsertionsNumber of gaps in reference relative to query. -
unsigned AlignmentStats::numMatchesNumber of match (identity) events. -
unsigned AlignmentStats::numMismatchesNumber of mismatch (not identity) events. -
unsigned AlignmentStats::numNegativeScoresNumber of residues aligned with negative score. -
unsigned AlignmentStats::numPositiveScoresNumber of residues aligned with positive score (0 is counted as positive).
See Also
Member Functions Detail
AlignmentStats::AlignmentStats();
Constructor
All members are initialized to 0.
Data Races
Thread safety unknown!
Interface Functions Detail
void clear(stats);
Resets all members to 0.
Parameters
stats
|
AlignmentStats object to clear. |
|---|
Data Races
Thread safety unknown!
Member Variables Detail
float AlignmentStats::alignmentIdentity
The resulting alignment percent identity (match).
unsigned AlignmentStats::alignmentLength
Length of the aligned region
int AlignmentStats::alignmentScore
The resulting alignment score.
float AlignmentStats::alignmentSimilarity
The resulting alignment percent similarity (positive).
unsigned AlignmentStats::numDeletions
Number of gaps in query relative to reference.
unsigned AlignmentStats::numGapExtensions
Number of gap extension events.
unsigned AlignmentStats::numGapOpens
Number of gap open events.
unsigned AlignmentStats::numGaps
Number of gap characters (sum of numGapOpens and numGapExtensions)
unsigned AlignmentStats::numInsertions
Number of gaps in reference relative to query.
unsigned AlignmentStats::numMatches
Number of match (identity) events.
unsigned AlignmentStats::numMismatches
Number of mismatch (not identity) events.
unsigned AlignmentStats::numNegativeScores
Number of residues aligned with negative score.
unsigned AlignmentStats::numPositiveScores
Number of residues aligned with positive score (0 is counted as positive).