Enum: SequenceAlphabet

Types of sequence alphabets used in bioinformatics

Permissible Values

Value	Meaning	Description
DNA	None	Deoxyribonucleic acid alphabet (A, T, G, C)
RNA	None	Ribonucleic acid alphabet (A, U, G, C)
PROTEIN	None	Protein/amino acid alphabet (20 standard AAs)
IUPAC_DNA	None	Extended DNA with IUPAC ambiguity codes
IUPAC_RNA	None	Extended RNA with IUPAC ambiguity codes
IUPAC_PROTEIN	None	Extended protein with ambiguity codes and rare AAs
RESTRICTED_DNA	None	Unambiguous DNA bases only (A, T, G, C)
RESTRICTED_RNA	None	Unambiguous RNA bases only (A, U, G, C)
BINARY	None	Binary encoding of sequences

Slots

Name	Description
sequence_alphabet	Types of sequence alphabets used in bioinformatics

Identifier and Mapping Information

Schema Source

from schema: https://w3id.org/linkml/valuesets

LinkML Source

name: SequenceAlphabet
description: Types of sequence alphabets used in bioinformatics
title: Sequence Alphabet Types
from_schema: https://w3id.org/linkml/valuesets
rank: 1000
permissible_values:
  DNA:
    text: DNA
    description: Deoxyribonucleic acid alphabet (A, T, G, C)
  RNA:
    text: RNA
    description: Ribonucleic acid alphabet (A, U, G, C)
  PROTEIN:
    text: PROTEIN
    description: Protein/amino acid alphabet (20 standard AAs)
  IUPAC_DNA:
    text: IUPAC_DNA
    description: Extended DNA with IUPAC ambiguity codes
  IUPAC_RNA:
    text: IUPAC_RNA
    description: Extended RNA with IUPAC ambiguity codes
  IUPAC_PROTEIN:
    text: IUPAC_PROTEIN
    description: Extended protein with ambiguity codes and rare AAs
  RESTRICTED_DNA:
    text: RESTRICTED_DNA
    description: Unambiguous DNA bases only (A, T, G, C)
  RESTRICTED_RNA:
    text: RESTRICTED_RNA
    description: Unambiguous RNA bases only (A, U, G, C)
  BINARY:
    text: BINARY
    description: Binary encoding of sequences