read.genome: Read the genome of a given organism
In HajkD/seqreadr: Read Biological Sequence File Formats

Description Usage Arguments Details Value Author(s) Examples

Read an organism specific genome stored in fasta/fastq file format.

1	read.genome(file, format, ...)

`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"` or `format = "fastq"`.
`...`	additional arguments that are used by the `readDNAStringSet` function.

The read.genome function takes a string specifying the path to the genome file of interest as first argument.

Genomes stored in fasta files can be downloaded from http://ensemblgenomes.org/info/genomes.

A data.frame storing the gene id in the first column, the corresponding sequence as string in the second column, and the sequence length in the third column.

Hajk-Georg Drost

# reading a genome stored in a fasta file
Ath.genome <- read.genome(system.file('seqs/ortho_thal_cds.fasta', package = 'seqreadr'),
                           format = "fasta")

dplyr::glimpse(Ath.genome)