Python computing_frequencies Examples

Example #1

File: faster_frequent_words.py Project: ljtheminister/sequencing

def faster_frequent_words(text, k):
    frequent_patterns = set()
    frequency_array = computing_frequencies(text, k)
    max_count = max(frequency_array)
    for pattern, count in frequency_array.iteritems():
        if count == max_count:
            frequent_patterns.add(pattern)

Example #2

File: faster_frequent_words.py Project: ljtheminister/sequencing

def faster_frequent_words(text, k):
    frequent_patterns = set()
    frequency_array = computing_frequencies(text, k)
    max_count = max(frequency_array)
    for pattern, count in frequency_array.iteritems():
        if count == max_count:
            frequent_patterns.add(pattern)

Example #3

File: faster_frequent_words.py Project: DieterJoubert/coursera_Bioinformatics

def faster_frequent_words(text, k):
  frequent_patterns = []
  frequency_array = cf.computing_frequencies(text,k)
  max_count = max(frequency_array)
  for i in range(0,4**k):
    if frequency_array[i] == max_count:
      pattern = cf.number_to_pattern(i,k)
      if pattern not in frequent_patterns:
        frequent_patterns.append(pattern)
  return frequent_patterns

Example #4

File: clump_finding.py Project: DieterJoubert/coursera_Bioinformatics

def clump_finding(genome, k, t, L):
  frequent_patterns = []
  clump = [0] * (4**k)
  for i in range(0,len(genome)-L+1):
    text = genome[i:i+L]
    frequency_array = cf.computing_frequencies(text,k)
    for index in range(0,4**k):
      if frequency_array[index] >= t:
        clump[index] = 1
  for i in range(0,4**k):
    if clump[i] == 1:
      pattern = number_to_pattern(i, k)
      frequent_patterns.append(pattern)
  return frequent_patterns