setTranscriptomeFromObject: Set transcriptome_object of one UserMetadata object

In BgeeDB/BgeeCall: Automatic RNA-Seq present/absent gene expression calls generation

Set transcriptome_object of one UserMetadata object

Description

Method of the class UserMetadata. Set transcriptome_object of one UserMetadata object by using one DNAStringSet object as input.

Usage

setTranscriptomeFromObject(userObject, transcriptomeObject, transcriptomeName)

## S4 method for signature 'UserMetadata,DNAStringSet,character'
setTranscriptomeFromObject(userObject, transcriptomeObject, transcriptomeName)

Arguments

userObject	UserMetadata object
transcriptomeObject	Object of the DNAStringSet S4 class
transcriptomeName	Name of the transcriptome. Will be used to create transcriptome folders.

Details

Please use a DNAStringSet object as input. This class is defined in the Biostrings package

Value

an object of UserMetadata

Examples

{
user <- new("UserMetadata")
transcriptome_object <- Biostrings::readDNAStringSet(
    system.file("extdata", "transcriptome.fa", package = "BgeeCall"))
user <- setTranscriptomeFromObject(user,
                 transcriptome_object,
                 "transcriptome_name")
}

BgeeDB/BgeeCall documentation built on Nov. 10, 2023, 5:40 a.m.