align

Documentation

Index

• Constants
• func DetectAlphabet(seq string) int
• func NewAlign(alphabet int) *align
• func NewSequence(name string, sequence string, comment string) *seq
• type Alignment
• type Sequence

Constants

const (
	AMINOACIDS = 0 // Amino acid sequence alphabet
	NUCLEOTIDS = 1 // Nucleotid sequence alphabet

)

Functions

func DetectAlphabet

func DetectAlphabet(seq string) int

func NewAlign

func NewAlign(alphabet int) *align

func NewSequence

func NewSequence(name string, sequence string, comment string) *seq

Types

type Alignment

type Alignment interface {
	AddSequence(name string, sequence string, comment string) error
	GetSequence(name string) (string, bool)
	Iterate(it func(name string, sequence string))
	NbSequences() int
	Length() int
	ShuffleSequences()
	ShuffleSites(rate float64)
	Sample(nb int) (Alignment, error)
	BuildBootstrap() Alignment
	Recombine(rate float64)
}

type Sequence

type Sequence interface {
	Sequence()
	Name()
	Comment()
}