merge_transcriptome_and_intergenic: Merge transcriptome file provided by the user with the Bgee...

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

Merge transcriptome file provided by the user with the Bgee intergenic fasta file.

Description

This function will create a file corresponding to the concatenation of the transcriptome fasta file provided by the user and the corresponding intergenic fasta file created by Bgee.

Usage

merge_transcriptome_and_intergenic(
  myKallistoMetadata,
  myBgeeMetadata,
  myUserMetadata
)

Arguments

myKallistoMetadata	A Reference Class KallistoMetadata object.
myBgeeMetadata	A Reference Class BgeeMetadata object.
myUserMetadata	A Reference Class UserMetadata object.

Value

save merged file on the hard drive

Author(s)

Julien Wollbrett.

Examples

{
bgee <- new('BgeeMetadata', intergenic_release = '0.1')
user <- new ('UserMetadata', species_id = '6239')
kallisto <- new('KallistoMetadata')
user <- setTranscriptomeFromFile(user, system.file("extdata", 
"transcriptome.fa", package = "BgeeCall"), 'WBcel235')
merge_transcriptome_and_intergenic(kallisto, bgee, user)
}

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