Store sequence and related information. More...

Public Types
typedef detail::Id_map< Seq_id, Seq_entry >	seq_map

typedef boost::shared_ptr< seq_map >	seq_map_ptr

typedef detail::Vector_set< sub_seq >	sub_seq_set

typedef detail::Vector_set< super_seq >	super_seq_set

typedef seq_index::iterator	iterator

typedef seq_index::const_iterator	const_iterator

Public Member Functions
std::size_t	size () const

const_iterator	begin () const

const_iterator	end () const

bool	empty () const

Seq_entry const &	operator[] (const Seq_id sid) const

boost::shared_ptr< seq_map >	sequence_map ()

size_range	by_size () const

size_range	by_size (const unsigned size) const

size_range	by_size_range (const unsigned from, const unsigned to=std::numeric_limits< unsigned >::max()) const

Seq_id	insert (const Read_id rid, const boost::string_ref seq)
	insert name and sequence checking for duplicates

template<class Super_seqs >
void	remove_subsequence (const Seq_id sid, Super_seqs const &ss)

super_seq_set const &	maps_to (const Read_id iid) const

sub_seq_set const &	maps_from (const Seq_id sid) const

Detailed Description

Store sequence and related information.

Member Function Documentation

size_range vdj_pipe::Seq_store::by_size ( ) const

inline

size_range vdj_pipe::Seq_store::by_size ( const unsigned size ) const

inline

size_range vdj_pipe::Seq_store::by_size_range	(	const unsigned	from,
		const unsigned	to = `std::numeric_limits<unsigned>::max()`
	)		const

inline

Returns: range of sequence info IDs that have % size in the range [from, to)

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