BitMagic-C++: CSeqGroup Class Reference

BitMagic-C++

Group (clustrer) of sequences. More...

Public Member Functions
	CSeqGroup (bm::id64_t lead_id=~0ull)
void	set_lead (bm::id64_t lead_id)
	set id for the group representative
bm::id64_t	get_lead () const
	Get lead id.
bool	is_assigned ()
	check is cluster is non-empty
void	add_member (bm::id64_t id)
	add a member to the group
void	add_member (bm::id64_t id, const bm::bvector<> &bv_kmer)
void	add_member_sync (bm::id64_t id, const bm::bvector<> &bv_kmer)
void	merge_member_sync (bm::bvector<> &bv_seq, bm::bvector<> &bv_kmer)
bm::id64_t	count_and_union_sync (const bm::bvector<> &bv)
void	clear_member (bm::id64_t id)
bm::bvector &	get_rep ()
const bm::bvector &	get_rep () const
const bm::bvector &	get_members () const
bm::bvector &	get_members ()
bm::bvector &	get_kmer_union ()
const bm::bvector &	get_kmer_union () const

Friends
class	CSeqClusters

Detailed Description

Group (clustrer) of sequences.

Examples: xsample07a.cpp.

Definition at line 686 of file xsample07a.cpp.

Constructor & Destructor Documentation

◆ CSeqGroup()

CSeqGroup::CSeqGroup ( bm::id64_t lead_id = ~0ull )

inline

Examples: xsample07a.cpp.

Definition at line 689 of file xsample07a.cpp.

Member Function Documentation

◆ add_member() [1/2]

void CSeqGroup::add_member ( bm::id64_t id )

inline

add a member to the group

Examples: xsample07a.cpp.

Definition at line 705 of file xsample07a.cpp.

Referenced by compute_group(), and set_lead().

◆ add_member() [2/2]

void CSeqGroup::add_member	(	bm::id64_t	id,
		const bm::bvector<> &	bv_kmer )

inline

Definition at line 706 of file xsample07a.cpp.

◆ add_member_sync()

void CSeqGroup::add_member_sync	(	bm::id64_t	id,
		const bm::bvector<> &	bv_kmer )

inline

Examples: xsample07a.cpp.

Definition at line 711 of file xsample07a.cpp.

Referenced by assign_to_best_cluster_union().

◆ clear_member()

void CSeqGroup::clear_member ( bm::id64_t id )

inline

Examples: xsample07a.cpp.

Definition at line 731 of file xsample07a.cpp.

Referenced by compute_group(), and resolve_duplicates().

◆ count_and_union_sync()

bm::id64_t CSeqGroup::count_and_union_sync ( const bm::bvector<> & bv )

inline

Examples: xsample07a.cpp.

Definition at line 725 of file xsample07a.cpp.

References bm::count_and().

Referenced by assign_to_best_cluster_union().

◆ get_kmer_union() [1/2]

bm::bvector & CSeqGroup::get_kmer_union ( )

inline

Examples: xsample07a.cpp.

Definition at line 739 of file xsample07a.cpp.

Referenced by compute_seq_group_union().

◆ get_kmer_union() [2/2]

const bm::bvector & CSeqGroup::get_kmer_union ( ) const

inline

Definition at line 740 of file xsample07a.cpp.

◆ get_lead()

bm::id64_t CSeqGroup::get_lead ( ) const

inline

Get lead id.

Examples: xsample07a.cpp.

Definition at line 699 of file xsample07a.cpp.

Referenced by compute_group(), CSeqClusters::elect_leaders(), CSeqClusters::print_summary(), and resolve_duplicates().

◆ get_members() [1/2]

bm::bvector & CSeqGroup::get_members ( )

inline

Definition at line 737 of file xsample07a.cpp.

◆ get_members() [2/2]

const bm::bvector & CSeqGroup::get_members ( ) const

inline

Examples: xsample07a.cpp.

Definition at line 736 of file xsample07a.cpp.

Referenced by CSeqClusters::clear_empty_groups(), CSeqClusters::compute_avg_count(), compute_seq_group_union(), CSeqClusters::elect_leaders(), CSeqClusters::print_summary(), resolve_duplicates(), CSeqClusters::take_group(), and CSeqClusters::union_all_groups().

◆ get_rep() [1/2]

bm::bvector & CSeqGroup::get_rep ( )

inline

Examples: xsample07a.cpp.

Definition at line 733 of file xsample07a.cpp.

Referenced by assign_to_best_cluster(), compute_group(), CSeqClusters::elect_leaders(), and resolve_duplicates().

◆ get_rep() [2/2]

const bm::bvector & CSeqGroup::get_rep ( ) const

inline

Definition at line 734 of file xsample07a.cpp.

◆ is_assigned()

bool CSeqGroup::is_assigned ( )

inline

check is cluster is non-empty

Examples: xsample07a.cpp.

Definition at line 702 of file xsample07a.cpp.

Referenced by compute_group().

◆ merge_member_sync()

void CSeqGroup::merge_member_sync	(	bm::bvector<> &	bv_seq,
		bm::bvector<> &	bv_kmer )

inline

Examples: xsample07a.cpp.

Definition at line 718 of file xsample07a.cpp.

Referenced by assign_to_best_cluster().

◆ set_lead()

void CSeqGroup::set_lead ( bm::id64_t lead_id )

inline

set id for the group representative

Examples: xsample07a.cpp.

Definition at line 696 of file xsample07a.cpp.

References add_member().

Referenced by CSeqClusters::elect_leaders().

◆ CSeqClusters

friend class CSeqClusters

friend

Examples: xsample07a.cpp.

Definition at line 742 of file xsample07a.cpp.

References CSeqClusters.

Referenced by CSeqClusters.

The documentation for this class was generated from the following file:

xsample07a.cpp