Import RNA as Biostrings or data.table object

This function reads an organism specific RNA stored in a defined file format.

Usage

read_rna(file, format = "fasta", obj.type = "Biostrings", ...)

Arguments

file

a character string specifying the path to the file storing the RNA.

format

a character string specifying the file format used to store the genome, e.g. format = "fasta" (default) or format = "gbk".

obj.type

a character string specifying the object stype in which the genomic sequence shall be represented. Either as obj.type = "Biostrings" (default) or as obj.type = "data.table".

...

additional arguments that are used by read.fasta.

Value

A data.table storing the gene id in the first column and the corresponding sequence as string in the second column.

Details

This function takes a string specifying the path to the RNA file of interest as first argument. It is possible to read in different proteome file standards such as fasta or genebank.

See also

Other rna: getRNA(), getRNASet()

Other readers: read_cds(), read_genome(), read_gff(), read_proteome()

Author

Hajk-Georg Drost