translated: Check the sequence type of the pangenome

Description Usage Arguments Value Methods (by class) Examples

Description

This method checks whether the genes in the pangenome are on translated form (amino acid sequences) or not. A return value of FALSE only indicates that the storage mode for the genes is not an AAStringSet. While this leaves room for both RNA-, DNA- and BStringSet, only DNAStringSet makes much sense and is therefore assumed

Usage

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translated(object)

## S4 method for signature 'pgVirtual'
translated(object)

Arguments

object

A pgVirtual subclass

Value

A boolean indicating whether genes are translated (TRUE) or not (FALSE)

Methods (by class)

Examples

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testPG <- .loadPgExample()

# Genes are translated
translated(testPG)

# ... and therefore returned as AAStringSet instead of DNAStringSet
class(genes(testPG, subset=1))

thomasp85/FindMyFriends documentation built on April 25, 2020, 1:06 p.m.