Method: String#nt_parser

Defined in:
lib/viral_seq/string.rb

#nt_parser ⇒ Regexp

parse the nucleotide sequences as a String object

and return a Regexp object for possible matches

Examples:

parse a sequence with ambiguities

"ATRWCG".nt_parser
=> /AT[A|G][A|T]CG/

Returns:

  • (Regexp) —

    as possible matches



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# File 'lib/viral_seq/string.rb', line 45

def nt_parser
  match = ""
  self.each_char.each do |base|
    base_array = base.to_list
    if base_array.size == 1
      match += base_array[0]
    else
      pattern = "[" + base_array.join("|") + "]"
      match += pattern
    end
  end
  Regexp.new match
end