compactPairMatchIds

| Function compactPairMatchIds Renames pairMatchId sequentially beginning with 0. compactPairMatchIds(store) Include Headers seqan/store.h Parameters
store | The fragment store. Types: FragmentStore
Remarks This function renames the pairMatchId in the alignedReadStore sequentially beginning with 0. Two read alignments can be identified to be a pair match if they have the same pairMatchId. Please note that paired reads not necessarily have to mapped as a pair match, e.g. if they are on different contigs or have the same orientation or a wrong insert size. Return Values The number of pair matches. SeqAn - Sequence Analysis Library - www.seqan.de

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