plyranges (version 1.9.3)

write_gff: Write a GFF(123) file

Description

This is a lightweight wrapper to the export family of functions defined in rtracklayer.

Usage

write_gff(x, file, index = FALSE)
write_gff1(x, file, index = FALSE)
write_gff2(x, file, index = FALSE)
write_gff3(x, file, index = FALSE)

Arguments

x

A GRanges object

file

Path or connection to write to

index

If TRUE the output file will be compressed and indexed using bgzf and tabix.

Value

The write function returns a GFFFile object invisibly

See Also

rtracklayer::GFFFile()

Examples

# NOT RUN {
 test_path <- system.file("tests", package = "rtracklayer")
 test_gff3 <- file.path(test_path, "genes.gff3")
 gr <- read_gff3(test_gff3)
 out_gff3 <- file.path(tempdir(), "test.gff3")
 write_gff3(gr, out_gff3)
 read_gff3(out_gff3)
# }