Package csb :: Package bio :: Package sequence :: Class SequenceAlphabets

Class SequenceAlphabets

object --+
         |
        SequenceAlphabets

Sequence alphabet enumerations.

Note: This class is kept for backwards compatibility. The individual alphabet classes must be defined in the top level namespace, otherwise the new enum types cannot be pickled properly.

Nested Classes
	Nucleic Nucleic sequence alphabet
	Protein Protein sequence alphabet
	StdProtein Standard protein sequence alphabet
	Unknown Unknown sequence alphabet

Instance Methods
Inherited from `object`: `__delattr__`, `__format__`, `__getattribute__`, `__hash__`, `__init__`, `__new__`, `__reduce__`, `__reduce_ex__`, `__repr__`, `__setattr__`, `__sizeof__`, `__str__`, `__subclasshook__`

Static Methods

get(type)
Get the alphabet corresponding to the specified sequence type source code

Class Variables
	MAP = `{DNA: <NucleicAlphabet: NotT=V, Purine=R, ...>, NucleicA...`

Properties
Inherited from `object`: `__class__`

Class Variable Details

MAP

Value:

{DNA: <NucleicAlphabet: NotT=V, Purine=R, ...>,
 NucleicAcid: <NucleicAlphabet: NotT=V, Purine=R, ...>,
 Protein: <ProteinAlphabet: ILE=I, GLN=Q, ...>,
 RNA: <NucleicAlphabet: NotT=V, Purine=R, ...>,
 Unknown: <UnknownAlphabet: UNK=X, INSERTION=., ...>}