Class
AlignmentStatsStatistics about a tabular alignment.
Statistics about a tabular alignment.
Defined in  <seqan/align.h> 

Signature 
struct AlignmentStats;

Member Function Overview

AlignmentStats::AlignmentStats();
Constructor
Interface Function Overview

void clear(stats);
Resets all members to 0.
Member Variable Overview

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).
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).