cdd_pssm_input.hpp File Reference

Defines a concrete strategy to obtain PSSM input data for PSI-BLAST. More...

#include <corelib/ncbiobj.hpp>
#include <algo/blast/api/blast_aux.hpp>
#include <algo/blast/api/psi_pssm_input.hpp>
#include <algo/blast/api/rps_aux.hpp>
#include <algo/blast/core/blast_options.h>
#include <algo/blast/core/blast_psi.h>
#include <objects/seqloc/Seq_id.hpp>
#include <objtools/blast/seqdb_reader/seqdb.hpp>

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Classes
class	IPssmInputCdd
	Interface for strategy to pre-process multiple alignment of conserved domains matches as input data for PSSM engine. More...
class	CCddInputData
	Strategy for pre-processing RPS-BLAST matches for PSSM computation. More...
class	CCddInputData::CHitSegment
	Represents one alignment segment of a RPS-BLAST hit. More...
class	CCddInputData::CHit
	Single RPS-BLAST hit. More...
class	CCddInputData::compare_hitseg_range
	Class used for sorting hit segments by range. More...
class	CCddInputData::compare_range
	Class used for sorting ranges. More...
class	CCddInputData::compare_hits_by_seqid_eval
	Class used for sorting hits by subject seq-id and e-value. More...

Detailed Description

Defines a concrete strategy to obtain PSSM input data for PSI-BLAST.

Definition in file cdd_pssm_input.hpp.