Table of Contents

Module: utils Bio/utils.py
Imported modules   
from PropertyManager import default_manager
import Seq
import string
Functions   
back_transcribe
back_translate
count_monomers
sum
sum_2ple
total_weight
total_weight_range
transcribe
translate
translate_to_stop
ungap
verify_alphabet
  back_transcribe 
back_transcribe ( seq )

  back_translate 
back_translate ( seq,  id=None )

  count_monomers 
count_monomers ( seq )

  sum 
sum (
        seq,
        table,
        zero=0.0,
        )

  sum_2ple 
sum_2ple (
        seq,
        table,
        zero=( 0.0, 0.0 ),
        )

For ranged addition

  total_weight 
total_weight ( seq,  weight_table=None )

  total_weight_range 
total_weight_range ( seq,  weight_table=None )

  transcribe 
transcribe ( seq )

  translate 
translate ( seq,  id=None )

  translate_to_stop 
translate_to_stop ( seq,  id=None )

  ungap 
ungap ( seq )

given a sequence with gap encoding, return the ungapped sequence

  verify_alphabet 
verify_alphabet ( seq )


Table of Contents

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