NCBI C++ ToolKit
adapter_search.hpp File Reference
#include <corelib/ncbitype.h>
#include <corelib/ncbistl.hpp>
#include <vector>
#include <set>
#include <map>
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class  NAdapterSearch
class  NAdapterSearch::IAdapterDetector
struct  NAdapterSearch::IAdapterDetector::SParams
 An adapter sequence is presumed to occur at least min_support times in the input, and is overrepresented by a factor of at least min_init_factor relative to most frequent biological words. More...
class  NAdapterSearch::CUnpairedAdapterDetector
 This class assembles adapter sequence based on distribution of word counts. More...
class  NAdapterSearch::CPairedEndAdapterDetector
class  NAdapterSearch::CPairedEndAdapterDetector::CConsensusPattern
 CConsensusPattern calculates most frequent pattern from a set of (noisy) exemplars based on distribution of 10-mer frequencies at every position of the pattern. More...
class  NAdapterSearch::CSimpleUngappedAligner
 Find ungapped alignment of queries to a subject The subject sequence is presumed to be fairly short (~100 bases, few kb max) More...
struct  NAdapterSearch::CSimpleUngappedAligner::SMatch
 Represents single ungapped alignment. More...
Modified on Sat Jul 13 13:38:49 2024 by rev. 669887