extract-methods: An S4 class to extract elements for objects created with...

In genomaths/GenomAutomorphism: Compute the automorphisms between DNA's Abelian group representations

An S4 class to extract elements for objects created with GenomAutomorphism package

Description

First and second level subsetting of 'x'. Extraction using names can be done as x$name.

Usage

## S4 method for signature 'AutomorphismList,ANY'
x[i, j, ..., drop = TRUE]

## S4 method for signature 'ListCodonMatrix,ANY'
x[i, j, ..., drop = TRUE]

## S4 method for signature 'MatrixSeq,ANY'
x[i, j, ..., drop = TRUE]

## S4 method for signature 'AutomorphismList'
x[[i, j, ...]]

## S4 method for signature 'ListCodonMatrix'
x[[i, j, ...]]

## S4 method for signature 'AutomorphismList'
x$name

## S4 method for signature 'ListCodonMatrix'
names(x)

## S4 method for signature 'ListCodonMatrix'
x$name

## S4 method for signature 'MatrixSeq'
x$name

## S4 replacement method for signature 'MatrixSeq'
names(x) <- value

Arguments

x	An object from AutomorphismList, ListCodonMatrix, or MatrixSeq.
i, j, ...	As in Extract.
name	Element name in the list 'x'.
value	A character vector of up to the same length as x, or NULL.

Value

An object from AutomorphismList, ListCodonMatrix, or MatrixSeq class.

Author(s)

Robersy Sanchez https://genomaths.com

Robersy Sanchez (https://genomaths.com).

Examples

## Load automorphisms found BRCA1 primate genes
data("brca1_autm", package = "GenomAutomorphism")

## Extract AutomorphismList object with only one element
brca1_autm[1]

## Extract Automorphism object with only one element
brca1_autm[[3]]

## Extract Automorphism object using element name.
brca1_autm[["human_1.gorilla_1"]]

genomaths/GenomAutomorphism documentation built on Dec. 12, 2024, 2:12 p.m.