paml_rst-class {treeio} | R Documentation

## Class "paml_rst" This class stores information of rst file from PAML output

### Description

Class "paml_rst" This class stores information of rst file from PAML output

### Slots

`fields`

  availabel attributes

`treetext`

  tree text

`phylo`

  phylo object

`seq_type`

  one of "NT" and "AA"

`tip_seq`

  sequences of tips

`marginal_ancseq`

  Marginal reconstruction of ancestral sequences

`joint_ancseq`

  Joint reconstruction of ancestral sequences

`marginal_subs`

  sequence substitutions based on marginal_ancseq

`joint_subs`

  sequence substitutions based on joint_ancseq

`marginal_AA_subs`

  Amino acid sequence substitutions based on marginal_ancseq

`joint_AA_subs`

  Amino acid sequence substitutions based on joint_ancseq

`rstfile`

  rst file

`extraInfo`

  extra information

### Author(s)

Guangchuang Yu http://guangchuangyu.github.io

### See Also

codeml codeml_mlc

[Package treeio version 1.2.2 Index]