asr

Documentation

Overview

package acr provides data structures & functions for ancestral sequence reconstruction methods

Index

• Constants
• func ParsimonyAsr(t *tree.Tree, a align.Alignment, algo int, randomResolve bool) (nsteps []int, err error)
• type AncestralSequence
  • func NewAncestralSequence(length int, alphabetlength int) (*AncestralSequence, error)
• type AncestralState

Constants

const (
	ALGO_DELTRAN = iota
	ALGO_ACCTRAN
	ALGO_DOWNPASS
	ALGO_NONE
)

Functions

func ParsimonyAsr

func ParsimonyAsr(t *tree.Tree, a align.Alignment, algo int, randomResolve bool) (nsteps []int, err error)

Will annotate the tree nodes with ancestral sequences Computed using parsimony Sequences will be located in the comment field of each node at the first index

Types

type AncestralSequence

type AncestralSequence struct {
	// contains filtered or unexported fields
}

func NewAncestralSequence

func NewAncestralSequence(length int, alphabetlength int) (*AncestralSequence, error)

type AncestralState

type AncestralState struct {
	// contains filtered or unexported fields
}