Contents

#!/usr/bin/env ruby
#
# gb2fasta.rb - convert GenBank entry into FASTA format (nuc)
#
#   Copyright (C) 2001 KATAYAMA Toshiaki <[e-mail]>
#   Copyright (C) 2002 Yoshinori K. Okuji <[e-mail]>
#
#  This program is free software; you can redistribute it and/or modify
#  it under the terms of the GNU General Public License as published by
#  the Free Software Foundation; either version 2 of the License, or
#  (at your option) any later version.
#
#  This program is distributed in the hope that it will be useful,
#  but WITHOUT ANY WARRANTY; without even the implied warranty of
#  MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
#  GNU General Public License for more details.
#
#  $Id: gb2fasta.rb,v 0.6 2008/02/05 12:11:11 pjotr Exp $
#

require 'bio'

include Bio

ff = FlatFile.new(GenBank, ARGF)

while gb = ff.next_entry
  print gb.seq.to_fasta("gb:#{gb.entry_id} #{gb.definition}", 70)
end

Version data entries

29 entries across 29 versions & 4 rubygems

Version	Path
bio-2.0.5	sample/gb2fasta.rb
bio-2.0.4	sample/gb2fasta.rb
bio-2.0.3	sample/gb2fasta.rb
bio-2.0.2	sample/gb2fasta.rb
bio-2.0.1	sample/gb2fasta.rb
bio-2.0.0	sample/gb2fasta.rb
bio-1.6.0.pre.20181210	sample/gb2fasta.rb
bio-1.5.2	sample/gb2fasta.rb
bio-1.5.1	sample/gb2fasta.rb
bio-1.5.0	sample/gb2fasta.rb
bioruby-bio-1.2.9.9001	sample/gb2fasta.rb
bioruby-bio-1.2.9.9501	sample/gb2fasta.rb
bioruby-bio-1.3.0.5000	sample/gb2fasta.rb
bioruby-bio-1.3.0.9901	sample/gb2fasta.rb
bioruby-bio-1.3.0	sample/gb2fasta.rb
bioruby-bio-1.3.1.5000	sample/gb2fasta.rb
jandot-bio-1.2.1	sample/gb2fasta.rb
ngoto-bio-1.2.9.9001	sample/gb2fasta.rb
ngoto-bio-1.2.9.9501	sample/gb2fasta.rb
ngoto-bio-1.3.0.5000	sample/gb2fasta.rb