CloneSet328

Bio/HMM/MarkovModel.py

Bio/HMM/MarkovModel.py

    def _all_blank(self,first_alphabet,second_alphabet):  
        """Return a dictionary with all counts set to zero.

        This uses the letters in the first and second alphabet to create
        a dictionary with keys of two tuples organized as
        (letter of first alphabet, letter of second alphabet). The values
        are all set to 0.
        """ 
        all_blank = { } 
        for first_state in first_alphabet.letters: 
             for second_state in second_alphabet.letters: 
                  all_blank[(first_state,second_state)] =  0 
             
        return all_blank 

    def _all_pseudo(self,first_alphabet,second_alphabet):  
        """Return a dictionary with all counts set to a default value.

        This takes the letters in first alphabet and second alphabet and
        creates a dictionary with keys of two tuples organized as:
        (letter of first alphabet, letter of second alphabet). The values
        are all set to the value of the class attribute DEFAULT_PSEUDO.
        """ 
        all_counts = { } 
        for first_state in first_alphabet.letters: 
             for second_state in second_alphabet.letters: 
                  all_counts[(first_state,second_state)] =  self.DEFAULT_PSEUDO 
             
        return all_counts 

def [[#variable19a8d400]](self,first_alphabet,second_alphabet):
   [[#variable19a8d360]]
   [[#variable19a8d2e0]]= { } 
  for first_state in first_alphabet.letters:
  
    for second_state in second_alphabet.letters:
    
       [[#variable19a8d2e0]][(first_state,second_state)] = [[#variable19a8d280]]
    
  return [[#variable19a8d2e0]]
 

_all_pseudo 

_all_blank 

"""Return a dictionary with all counts set to a default value.

        This takes the letters in first alphabet and second alphabet and
        creates a dictionary with keys of two tuples organized as:
        (letter of first alphabet, letter of second alphabet). The values
        are all set to the value of the class attribute DEFAULT_PSEUDO.
        """ 

"""Return a dictionary with all counts set to zero.

        This uses the letters in the first and second alphabet to create
        a dictionary with keys of two tuples organized as
        (letter of first alphabet, letter of second alphabet). The values
        are all set to 0.
        """ 

all_counts 

all_blank 

self.DEFAULT_PSEUDO 

0