Base Class Reference

A class converts human readable bases to bit flags. More...

#include <base.h>

Public Member Functions
	Base (const char &)
	constructor from IUPCA base code.
	Base (const gt_t &)
	constructor from Base.

Static Public Member Functions
static char	btoc (const gt_t &)
static gt_t	ctob (const char &)

Data Fields
gt_t	base
	Represents a single base.

Private Attributes
bool	masked
	indicates the site has been masked. More...

Friends
std::ostream &	operator<< (std::ostream &, const Base &)
	use the << operator to write Allele.
std::istream &	operator>> (std::istream &, Base &)
	use the >> operator to read Allele.

Detailed Description

A class converts human readable bases to bit flags.

Uses a bit flags to represent the IUPCA encoded bases. Bits 1,2,3 and 4 represent A, C, G and T. An ambiguous base will set all applicable flags.

Field Documentation

bool Base::masked

private

indicates the site has been masked.

Some calculations check if a site is masked before use.

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

• mapgd_0.4/raw/base.h
• mapgd_0.4/raw/base.cc