WriteGenes: Write Genes to a File
In DECIPHER: Tools for curating, analyzing, and manipulating biological sequences

Description Usage Arguments Details Value Author(s) See Also Examples

Writes predicted genes to a file in GenBank (gbk) or general feature format (gff).

WriteGenes(x,
           file = "",
           format = "gbk",
           append = FALSE)

`x`	An object of class `Genes`.
`file`	A connection or a character string naming the file path where the tree should be exported. If "" (the default), the tree is printed to the standard output connection, the console unless redirected by sink.
`format`	Character specifying `"gbk"` or `"gff"` output format.
`append`	Logical indicating whether to append to an existing `file`. Only applicable if `file` is a character string. If `FALSE` (the default), then the file is overwritten.

WriteGenes will write a "Genes" object to a GenBank (if format is "gbk") or general feature format (if format is "gff") file.

NULL.

Erik Wright eswright@pitt.edu

ExtractGenes, FindGenes, Genes-class

# import a test genome
fas <- system.file("extdata",
	"Chlamydia_trachomatis_NC_000117.fas.gz",
	package="DECIPHER")
genome <- readDNAStringSet(fas)

x <- FindGenes(genome)
WriteGenes(x[1:10,], format="gbk")
WriteGenes(x[1:10,], format="gff")