OGR-class {geneplast} | R Documentation

## Class `"OGR"`: an S4 class for rooting analysis.

### Description

This S4 class includes methods to do inferential analysis of evolutionary roots in a given species tree.

### Objects from the Class

Objects can be created by calls to the `"groot.preprocess"` constructor.

### Slots

`cogids`:

  Object of class `"data.frame"`, a data frame with COG's data.

`tree`:

  Object of class `"phylo"`, a given species tree.

`spbranches`:

  Object of class `"data.frame"`, a data frame listing branches of a given species tree.

`orthoroot`:

  Object of class `"data.frame"`, a data.frame with results from the 'groot' function (see return values in the OGR methods).

`orthoct`:

  Object of class `"data.frame"`, a data.frame with results from the 'groot.preprocess' function (see return values in the OGR methods).

`status`:

  Object of class `"character"`, a character value specifying the status of the OGR object based on the available methods.

### Methods

groot

  `signature(object = "OGR")`: see `groot`

groot.get

  `signature(object = "OGR")`: see `groot.get`

### Author(s)

Rodrigo Dalmolin, Mauro Castro

### See Also

`groot.preprocess`

[Package geneplast version 1.13.2 Index]