theplu::yat::omic::GFF Class Reference

#include <yat/omic/GFF.h>

Inheritance diagram for theplu::yat::omic::GFF:

List of all members.

Public Member Functions
	GFF (void)
	Default Constructor.
virtual	~GFF (void)
	Destructor.
const std::string &	attribute (const std::string &key) const
const std::map< std::string, std::string > &	attributes (void) const
const std::string &	end (void) const
const std::string &	phase (void) const
const std::string &	score (void) const
const std::string &	seqid (void) const
const std::string &	source (void) const
const std::string &	start (void) const
const std::string &	strand (void) const
const std::string &	type (void) const
Protected Member Functions
const std::vector< std::string > &	vec (void) const
Friends
std::ostream &	operator<< (std::ostream &, const GFF &)
	protected friend
bool	getline (std::istream &, GFF &)
Related Functions
(Note that these are not member functions.)
bool	getline (std::istream &is, GFF &gff)
std::ostream &	operator<< (std::ostream &os, const GFF &gff)
	output operator for GFF

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Detailed Description

Abstract class for GFF2 and GFF3

Since:

New in yat 0.8

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Constructor & Destructor Documentation

theplu::yat::omic::GFF::GFF

(

void

)

Default Constructor.

Constructs an empty GFF. Class need to be loaded with function getline before calling any other functions.

See also:

getline(std::istream& is, GFF& gff);

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Member Function Documentation

const std::string& theplu::yat::omic::GFF::attribute

(

const std::string &

key

)

const

Returns:

attribute value for attribute key

If attribute with key key has several values, the values are given appended together comma-separated as it appears in file.

const std::map<std::string, std::string>& theplu::yat::omic::GFF::attributes

(

void

)

const

Returns:

map containing all attributes

See also:

attribute(const std::string& key) const

const std::string& theplu::yat::omic::GFF::end

(

void

)

const

Returns:

end string

const std::string& theplu::yat::omic::GFF::phase

(

void

)

const

Returns:

phase string

const std::string& theplu::yat::omic::GFF::score

(

void

)

const

Returns:

score string

const std::string& theplu::yat::omic::GFF::seqid

(

void

)

const

Returns:

seqid string

const std::string& theplu::yat::omic::GFF::source

(

void

)

const

Returns:

source string

const std::string& theplu::yat::omic::GFF::start

(

void

)

const

Returns:

start string

const std::string& theplu::yat::omic::GFF::strand

(

void

)

const

Returns:

strand string

const std::string& theplu::yat::omic::GFF::type

(

void

)

const

Returns:

type string

const std::vector<std::string>& theplu::yat::omic::GFF::vec ( void  ) const

protected

Returns:

vector with the 9 elements

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Friends And Related Function Documentation

bool getline ( std::istream &  is, GFF &  gff  )

related

Returns:

true iff a GFF object was loaded successfully

Empty lines and lines starting with '#' are ignored.

 \since New in yat 0.8

std::ostream & operator<< ( std::ostream &  os, const GFF &  gff  )

related

output operator for GFF

Since:

New in yat 0.8

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

• yat/omic/GFF.h