misshie

#!/usr/bin/env ruby
# License: the MIT lincense.
# Copyright: MISHIMA, Hiroyuki hmishima at nagasaki-u.ac.jp, 2015

require 'rexml/document'

class Qstat2
  JOBNAME_WIDTH = 65

  def initialize

misshie

iupac = {
  "A" => ["A"], # Adenine
  "C" => ["C"], # Cytosine
  "G" => ["G"], # Guanine
  "T" => ["T"], # Thymine
  "R" => ["A", "G"], # puRine
  "Y" => ["C", "T"], # pYrimidine
  "S" => ["G", "C"], # Strong
  "W" => ["A", "T"], # Weak
  "K" => ["G", "T"], # Keto

misshie

# A Ruby implementation of
# the Viterbi algorithm based on the hidden Markov model (HMM)
# 
# An original Python code: a Wikipedia page "Viterbi algorithm" at
# http://en.wikipedia.org/wiki/Viterbi_algorithm
#
# Author: MISHIMA, Hiroyuki
#

require 'pp'