biofiles (version 1.0.0)

write.FeatureTable: Write GenBank records or features to file in Feature Table format

Description

Feature Tables are simple five-column tab-delimited tables specifying the location and type of each feature. They can be used as input for tbl2asn or Sequin to generate annotation.

Usage

write.FeatureTable(x, file, tablename = "", dbname = "", sequence = FALSE,
  append = FALSE, ...)
# S4 method for gbRecord
write.FeatureTable(x, file, tablename = "",
  dbname = "", sequence = FALSE, append = FALSE)
# S4 method for gbFeatureTable
write.FeatureTable(x, file, tablename = "",
  dbname = "", sequence = FALSE, append = FALSE)

Arguments

x

A '>gbRecord instance.

file

A connection or a character string naming the file to write to.

tablename

Optional table name to appear in the first line of the feature table.

dbname

Data base name associated with the CDS qualifier protein_id.

sequence

if TRUE, additionally output a fasta file.

append

if TRUE the data is appended to the connection.

...

Additional arguments passed to methods.

Examples

# NOT RUN {
load(system.file("extdata", "marine_metagenome.rda", package = "biofiles"))
write.FeatureTable(x, file = "data/marine_metagenome.tbl")
# }