groupNames: Get and set the names of gene groups in the pangenome

Description Usage Arguments Value Methods (by class) Note Examples

Description

These methods lets you manipulate the naming of gene groups in the pangenome. By default organisms are numbered consecutively but this can be changed at will. New gene groups will be numbered though despite what naming scheme has been introduced before.

Usage

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groupNames(object)

groupNames(object) <- value

## S4 method for signature 'pgInMem'
groupNames(object)

## S4 replacement method for signature 'pgInMem'
groupNames(object) <- value

Arguments

object

A pgVirtual subclass

value

A vector with new names - will be coerced to characters

Value

In case of the getter a character vector with names

Methods (by class)

Note

Required for subclasses of pgVirtual in order to extend the class system of FindMyFriends

Examples

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testPG <- .loadPgExample(withGroups=TRUE)
head(groupNames(testPG))

groupNames(testPG)[20] <- 'Gene group 20'

FindMyFriends documentation built on Nov. 8, 2020, 6:46 p.m.