appendLocalMatch

Function

appendLocalMatch

Append a new local match to a LocalMatchStore

appendLocalMatchStore(store, subjectId, subjectBeginPos, subjectEndPos, queryId, queryBeginPos, queryEndPos)

appendLocalMatchStore(store, subjectName, subjectBeginPos, subjectEndPos, queryName, queryBeginPos, queryEndPos, cigarStringBuffer)

Include Headers

seqan/parse_lm.h

Parameters

store	The store to add the local match to. Types: LocalMatchStore
subjectId	Numeric subject sequence identifier.
subjectName	The textual name of the query sequence. Types: CharString
subjectBegin	The begin position of the match in the subject.
subjectEnd	The end position of the match in the subject.
queryId	Numeric query sequence identifier.
queryName	The textual name of the query sequence. Types: CharString
queryBegin	The begin position of the match in the query.
queryEnd	The end position of the match in the query.
cigarStringBuffer	Buffer with the cigar string of the local alignment. Types: CharString

Remarks

Matches on the reverse-complement are encoded by the begin position being greater than the begin position.

Member of

SeqAn - Sequence Analysis Library - www.seqan.de