OGP-class: Class '"OGP"': an S4 class for genetic plasticity analysis.

In geneplast: Evolutionary and plasticity analysis of orthologous groups

Description

This S4 class includes methods to access the genetic plasticity of orthologous groups.

Objects from the Class

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

Slots

sspids:

Object of class "data.frame", a data frame with species annotation.

cogids:

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

orthodist:

Object of class "matrix", a matrix with COG's information (see return values in the OGP methods).

abundance:

Object of class "numeric", a numeric vector with results from the gplast function (see return values in the OGP methods).

diversity:

Object of class "numeric", a numeric vector with results from the gplast function (see return values in the OGP methods).

plasticity:

Object of class "numeric", a numeric vector with results from the gplast function (see return values in the OGP methods).

status:

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

Methods

gplast

signature(object = "OGP"): see gplast

gplast.get

signature(object = "OGP"): see gplast.get

Author(s)

Rodrigo Dalmolin, Mauro Castro

See Also

gplast.preprocess

geneplast documentation built on Nov. 8, 2020, 7:57 p.m.