hyphy-class {treeio}R Documentation

Class "hyphy" This class stores information of HYPHY output

Description

Class "hyphy" This class stores information of HYPHY output

Slots

fields

available features

treetext

tree text

phylo

phylo object

seq_type

one of "NT" and "AA"

subs

sequence substitutions

AA_subs

Amino acid sequence substitution

ancseq

ancestral sequences

tip_seq

tip sequences

tip.fasfile

fasta file of tip sequences

tree.file

tree file

ancseq.file

ancestral sequence file, nexus format

extraInfo

extra information

Author(s)

Guangchuang Yu http://guangchuangyu.github.io

See Also

paml_rst


[Package treeio version 1.2.2 Index]