Enum: SequenceQualityEncoding

Quality score encoding standards used in FASTQ files and sequencing data.

Different platforms and software versions use different ASCII offsets.

Permissible Values

Value	Meaning	Description
SANGER	None	Sanger/Phred+33 (PHRED scores, ASCII offset 33)
SOLEXA	None	Solexa+64 (Solexa scores, ASCII offset 64)
ILLUMINA_1_3	None	Illumina 1
ILLUMINA_1_5	None	Illumina 1
ILLUMINA_1_8	None	Illumina 1

Slots

Name	Description
sequence_quality_encoding	Quality score encoding standards used in FASTQ files and sequencing data

Identifier and Mapping Information

Schema Source

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

LinkML Source

name: SequenceQualityEncoding
description: 'Quality score encoding standards used in FASTQ files and sequencing
  data.

  Different platforms and software versions use different ASCII offsets.'
title: Sequence Quality Score Encodings
from_schema: https://w3id.org/linkml/valuesets
rank: 1000
permissible_values:
  SANGER:
    text: SANGER
    description: Sanger/Phred+33 (PHRED scores, ASCII offset 33)
    annotations:
      ascii_offset:
        tag: ascii_offset
        value: 33
      score_range:
        tag: score_range
        value: 0-93
      platforms:
        tag: platforms
        value: NCBI SRA, Illumina 1.8+
  SOLEXA:
    text: SOLEXA
    description: Solexa+64 (Solexa scores, ASCII offset 64)
    annotations:
      ascii_offset:
        tag: ascii_offset
        value: 64
      score_range:
        tag: score_range
        value: -5-62
      platforms:
        tag: platforms
        value: Early Solexa/Illumina
  ILLUMINA_1_3:
    text: ILLUMINA_1_3
    description: Illumina 1.3+ (PHRED+64, ASCII offset 64)
    annotations:
      ascii_offset:
        tag: ascii_offset
        value: 64
      score_range:
        tag: score_range
        value: 0-62
      platforms:
        tag: platforms
        value: Illumina 1.3-1.7
  ILLUMINA_1_5:
    text: ILLUMINA_1_5
    description: Illumina 1.5+ (PHRED+64, special handling for 0-2)
    annotations:
      ascii_offset:
        tag: ascii_offset
        value: 64
      score_range:
        tag: score_range
        value: 3-62
      platforms:
        tag: platforms
        value: Illumina 1.5-1.7
  ILLUMINA_1_8:
    text: ILLUMINA_1_8
    description: Illumina 1.8+ (PHRED+33, modern standard)
    annotations:
      ascii_offset:
        tag: ascii_offset
        value: 33
      score_range:
        tag: score_range
        value: 0-41
      platforms:
        tag: platforms
        value: Illumina 1.8+, modern sequencers