write.GenBank-methods: Write GenBank records or features to file in GenBank format

In biofiles: An Interface for GenBank/GenPept Flat Files

Description

Write GenBank records or features to file in GenBank format

Usage

write.GenBank(x, file, append = FALSE, ...)

## S4 method for signature 'gbRecord'
write.GenBank(x, file, header = TRUE, sequence = TRUE,
  append = FALSE)

## S4 method for signature 'gbFeatureTable'
write.GenBank(x, file, header = TRUE,
  sequence = TRUE, append = FALSE)

Arguments

x	A gbRecord instance.
file	A connection or a character string naming the file to write to.
append	if TRUE the data is appended to the connection.
...	Additional arguments passed to methods.
header	if FALSE exclude the Genbank header.
sequence	if FALSE exclude the sequence.

Details

For a description of the GenBank format see http://www.ncbi.nlm.nih.gov/collab/FT/

Examples

## Not run: 
load(system.file("extdata", "marine_metagenome.rda", package = "biofiles"))
write.GenBank(x, file = "data/marine_metagenome.gb")

## write selected features to file.
write.GenBank(x["CDS"], file = "data/marine_metagenome_cds.gb", header = FALSE, sequence = FALSE)

## End(Not run)

biofiles documentation built on May 2, 2019, 3:31 p.m.