Writer for SHORE FlatRead files. More...

Public Member Functions
	flatread_writer (const std::string &fn)

	flatread_writer (std::ostream *const os)

void	set_writetags (const bool w)
	Write the read tags (default: true).

void	set_applytags (const bool a)
	Clip sequence and qualities according to CLL/CLR and do not write bad quality reads (default: false).

void	set_discard_qual_aux (const bool b)
	Never write the 'qual_aux' field (chastity).

void	append (const shore::read &f)

void	append (const shore::alignment &f)

void	append (const shore::sff_read &f)

void	flush ()

Static Public Member Functions
static std::ostream &	write_read (std::ostream &out, const shore::read &e, const bool discard_qual_aux=false)
	Write a read without writing the read tags.

Detailed Description

Writer for SHORE FlatRead files.

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

Public Types