Import Genome Assembly as Biostrings or data.table object — read_genome • biomartr
Description: This function reads an organism specific genome stored in a defined file format.

# Import Genome Assembly as Biostrings or data.table object

Source: `R/read_genome.R`
`read_genome.Rd`

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

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

## Arguments

file

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

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 the `read.fasta` function.

## Value

Either a `Biostrings` or `data.table` object.

## Details

This function takes a string specifying the path to the genome file of interest as first argument (e.g. the path returned by `getGenome`).

## See also

Other genome: `getGenomeSet()`, `getGenome()`

Other readers: `read_cds()`, `read_gff()`, `read_proteome()`, `read_rna()`

## Author

Hajk-Georg Drost