
skbio.sequence.Protein
======================




   
      
   

   
      
   

   
      
   

   
      
   

   

   

   
      
   

   

   
      
   

   

   
      
   

   
      
   

   

   

   
      
   

   
      
   

   
      
   

   
      
   

   
      
   

   

   

   

   

   
      
   

   

   

   
      
   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   

   


.. currentmodule:: skbio.sequence

.. autoclass:: Protein

   
   .. rubric:: Attributes

   .. autosummary::
   
      ~Protein.alphabet
      ~Protein.default_gap_char
      ~Protein.default_write_format
      ~Protein.definite_chars
      ~Protein.degenerate_chars
      ~Protein.degenerate_map
      ~Protein.gap_chars
      ~Protein.interval_metadata
      ~Protein.metadata
      ~Protein.nondegenerate_chars
      ~Protein.observed_chars
      ~Protein.positional_metadata
      ~Protein.stop_chars
      ~Protein.values
   

   
   .. rubric:: Built-ins

   .. autosummary::
      :toctree:
   
      ~Protein.__bool__
      ~Protein.__contains__
      ~Protein.__copy__
      ~Protein.__deepcopy__
      ~Protein.__eq__
      ~Protein.__ge__
      ~Protein.__getitem__
      ~Protein.__gt__
      ~Protein.__iter__
      ~Protein.__le__
      ~Protein.__len__
      ~Protein.__lt__
      ~Protein.__ne__
      ~Protein.__reversed__
      ~Protein.__str__
   

   
   .. rubric:: Methods

   .. autosummary::
      :toctree:
   
      
      
      ~Protein.concat
      
      
      ~Protein.count
      
      
      ~Protein.definites
      
      
      ~Protein.degap
      
      
      ~Protein.degenerates
      
      
      ~Protein.distance
      
      
      ~Protein.expand_degenerates
      
      
      ~Protein.find_motifs
      
      
      ~Protein.find_with_regex
      
      
      ~Protein.frequencies
      
      
      ~Protein.gaps
      
      
      ~Protein.has_definites
      
      
      ~Protein.has_degenerates
      
      
      ~Protein.has_gaps
      
      
      ~Protein.has_interval_metadata
      
      
      ~Protein.has_metadata
      
      
      ~Protein.has_nondegenerates
      
      
      ~Protein.has_positional_metadata
      
      
      ~Protein.has_stops
      
      
      ~Protein.index
      
      
      ~Protein.iter_contiguous
      
      
      ~Protein.iter_kmers
      
      
      ~Protein.kmer_frequencies
      
      
      ~Protein.lowercase
      
      
      ~Protein.match_frequency
      
      
      ~Protein.matches
      
      
      ~Protein.mismatch_frequency
      
      
      ~Protein.mismatches
      
      
      ~Protein.nondegenerates
      
      
      ~Protein.read
      
      
      ~Protein.replace
      
      
      ~Protein.stops
      
      
      ~Protein.to_regex
      
      
      ~Protein.write
      
   