Class: EntropyFunction

Inherits:
BaseFunction show all
Defined in:
lib/scbi_cominer/classes/entropy_function.rb

Instance Attribute Summary

Attributes inherited from BaseFunction

#fft, #freq_table, #regions, #single_points, #snps, #values

Instance Method Summary collapse

Methods inherited from BaseFunction

#add_region, #calculate, #filter_regions, #graph, #graph2, #group_regions, #initialize, #purge_regions, #purge_snps, #regions_to_graph_data, #valid_region

Constructor Details

This class inherits a constructor from BaseFunction

Instance Method Details

#evaluate_pos(i) ⇒ Object 



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# File 'lib/scbi_cominer/classes/entropy_function.rb', line 9

def evaluate_pos(i)
  res = 0

  nseq = @freq_table.nseq(i) || 0

  if nseq>0 
    @freq_table.frequency_table.keys.each do |k|

      if k!='-'
        freq = @freq_table.frequency_table[k][i] || 0 

        co = freq.to_f/nseq.to_f
        if (co > 0)
          res += ((-1*co*log2(co)));
        end
      end
    end

  end

  return res

end

#log2(v) ⇒ Object 



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# File 'lib/scbi_cominer/classes/entropy_function.rb', line 5

def log2(v)
  return (Math.log10(v)/Math.log10(2))
end