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NCBI C++ ToolKit: include/algo/align/ngalign/result_set.hpp Source File

(

objects::CSeq_align_set& Results);

(

objects::CSeq_align_set& AlignSet);

(

AssemblyAcc =

)

;

objects::CSeq_align& New)

;

objects::CSeq_align& Inner)

;

AllowDupes =

);

(

objects::CSeq_id& Id)

;

(

blast::CSearchResultSet& BlastResults);

(

objects::CSeq_align_set& AlignSet);

(

objects::CSeq_id& Id);

User-defined methods of the data storage class.

CAlignResultsSet(CRef< objects::CGC_Assembly > Gencoll, bool AllowDupes=false)

CConstRef< CQuerySet > GetQuerySet(const objects::CSeq_id &Id) const

const TQueryToSubjectSet & Get() const

void Insert(CRef< CQuerySet > QuerySet)

map< string, CRef< CQuerySet > > TQueryToSubjectSet

void Insert(const objects::CSeq_align_set &AlignSet)

void DropQuery(const objects::CSeq_id &Id)

TQueryToSubjectSet m_QueryMap

CRef< CQuerySet > GetQuerySet(const objects::CSeq_id &Id)

bool QueryExists(const objects::CSeq_id &Id) const

TQueryToSubjectSet & Get()

CRef< objects::CSeq_align_set > ToBestSeqAlignSet() const

CRef< objects::CGC_Assembly > m_GenColl

void Insert(CRef< objects::CSeq_align > Alignment)

CRef< objects::CSeq_align_set > ToSeqAlignSet() const

CQuerySet(const blast::CSearchResults &Results, CRef< objects::CGC_Assembly > GenColl, bool AllowDupes=false)

bool x_ContainsAlignment(const objects::CSeq_align &Outer, const objects::CSeq_align &Inner) const

int GetBestRank(const string AssemblyAcc="") const

TAssemblyToSubjectSet m_AssemblyMap

CRef< objects::CSeq_align_set > ToSeqAlignSet() const

CRef< objects::CSeq_align_set > ToBestSeqAlignSet() const

CQuerySet(CRef< objects::CSeq_align > Alignment, CRef< objects::CGC_Assembly > GenColl, bool AllowDupes=false)

CQuerySet(const objects::CSeq_align_set &Results, CRef< objects::CGC_Assembly > GenColl, bool AllowDupes=false)

void Insert(CRef< objects::CSeq_align > Alignment)

CQuerySet(CRef< objects::CSeq_align > Alignment)

bool x_AlreadyContains(const objects::CSeq_align_set &Set, const objects::CSeq_align &New) const

TAssemblyToSubjectSet & Get()

void Insert(CRef< CQuerySet > QuerySet)

TSubjectToAlignSet m_SubjectMap

const TAssemblyToSubjectSet & Get() const

CRef< objects::CGC_Assembly > m_GenColl

map< string, CRef< objects::CSeq_align_set > > TSubjectToAlignSet

void x_FilterStrictSubAligns(objects::CSeq_align_set &Source) const

map< string, TSubjectToAlignSet > TAssemblyToSubjectSet

CRef< objects::CSeq_id > m_QueryId

CQuerySet(const blast::CSearchResults &Results)

CConstRef< objects::CSeq_id > GetQueryId() const

Search Results for All Queries.

Search Results for One Query.

Include a standard set of the NCBI C++ Toolkit most basic headers.

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define END_SCOPE(ns)

End the previously defined scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

#define BEGIN_SCOPE(ns)

Define a new scope.

Portable reference counted smart and weak pointers using CWeakRef, CRef, CObject and CObjectEx.

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