Class: Bioinform::MotifModel::DiPCM

Inherits:
DiPM
  • Object
show all
Defined in:
lib/sequence_logo/di_pm.rb

Instance Attribute Summary

Attributes inherited from DiPM

#matrix

Instance Method Summary collapse

Methods inherited from DiPM

#==, #each_position, from_file, #initialize, #length, #named, #to_s

Constructor Details

This class inherits a constructor from Bioinform::MotifModel::DiPM

Instance Method Details

#sum_dependent_on_first_letter(pos) ⇒ Object 



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# File 'lib/sequence_logo/di_pm.rb', line 69

def sum_dependent_on_first_letter(pos)
  mono_pos = Array.new(4, 0.0)
  pos.each.with_index{|count, diletter|
    first_letter = diletter / 4
    mono_pos[first_letter] += count
  }
  mono_pos
end

#sum_dependent_on_second_letter(pos) ⇒ Object 



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# File 'lib/sequence_logo/di_pm.rb', line 78

def sum_dependent_on_second_letter(pos)
  mono_pos = Array.new(4, 0.0)
  pos.each.with_index{|count, diletter|
    second_letter = diletter % 4
    mono_pos[second_letter] += count
  }
  mono_pos
end

#to_mono ⇒ Object 



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# File 'lib/sequence_logo/di_pm.rb', line 87

def to_mono
  mono_matrix = each_position.map{|pos|
    sum_dependent_on_first_letter(pos)
  } + [ sum_dependent_on_second_letter(matrix.last) ]

  PCM.new(mono_matrix, validator: Bioinform::MotifModel::PCM::DIFFERENT_COUNTS_VALIDATOR)
end