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NCBI C++ ToolKit: include/algo/blast/api/deltablast.hpp Source File

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x_Validate(

);

vector< CRef<CPssmWithParameters> >

;

User-defined methods of the data storage class.

#define NCBI_XBLAST_EXPORT

NULL operations for other cases.

Definition of classes which constitute the results of running a BLAST search.

Declares the CBlastRPSOptionsHandle class.

A simple realization of the DELTA-BLAST algorithm: seacrch domain database, compute PSSM,...

Class that supports setting the number of threads to use with a given algorithm.

Source of query sequence data for BLAST Provides an interface for search classes to retrieve sequence...

Declares the CDeltaBlastOptionsHandle class.

CDeltaBlast(const CDeltaBlast &rhs)

Prohibit copy constructor.

CRef< CSearchResultSet > m_Results

Pssm-protein search results.

CRef< IQueryFactory > m_Queries

Queries.

CRef< CLocalDbAdapter > m_Subject

Reference to a BLAST subject/database object.

vector< CRef< CPssmWithParameters > > m_Pssm

PSSMs computed for each query.

CConstRef< CDeltaBlastOptionsHandle > m_Options

Delta Blast options.

CRef< CBlastRPSOptionsHandle > m_RpsOptions

RPS Blast options.

CRef< CSearchResultSet > GetDomainResults()

Get results of conserved domain search (intermediate results)

CDeltaBlast & operator=(const CDeltaBlast &rhs)

Prohibit assignment operator.

~CDeltaBlast()

Destructor.

CRef< CLocalDbAdapter > m_DomainDb

Reference to a BLAST conserved domain database object.

CRef< CSearchResultSet > m_DomainResults

Conseved domain search (intermediate) results.

#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.

void Run(void)

Enter the main loop.

Declares class which provides internal BLAST database representations to the internal BLAST APIs.

NOTE: This file contains work in progress and the APIs are likely to change, please do not rely on th...

NOTE: This file contains work in progress and the APIs are likely to change, please do not rely on th...

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