Enum: DataProcessingLevel

Levels of processing applied to raw sequencing data

Permissible Values

Value	Meaning	Description
RAW	None	Raw unprocessed sequencing reads
QUALITY_FILTERED	None	Quality filtered reads
TRIMMED	None	Adapter/quality trimmed reads
ALIGNED	None	Aligned to reference genome
DEDUPLICATED	None	PCR duplicates removed
RECALIBRATED	None	Base quality score recalibrated
VARIANT_CALLED	None	Variants called from alignments
NORMALIZED	None	Expression normalized (RNA-seq)
ASSEMBLED	None	De novo assembled sequences
ANNOTATED	None	Functionally annotated sequences

Slots

Name	Description
data_processing_level	Levels of processing applied to raw sequencing data

Identifier and Mapping Information

Schema Source

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

LinkML Source

name: DataProcessingLevel
description: Levels of processing applied to raw sequencing data
title: Sequence Data Processing Levels
from_schema: https://w3id.org/linkml/valuesets
rank: 1000
permissible_values:
  RAW:
    text: RAW
    description: Raw unprocessed sequencing reads
  QUALITY_FILTERED:
    text: QUALITY_FILTERED
    description: Quality filtered reads
  TRIMMED:
    text: TRIMMED
    description: Adapter/quality trimmed reads
  ALIGNED:
    text: ALIGNED
    description: Aligned to reference genome
  DEDUPLICATED:
    text: DEDUPLICATED
    description: PCR duplicates removed
  RECALIBRATED:
    text: RECALIBRATED
    description: Base quality score recalibrated
  VARIANT_CALLED:
    text: VARIANT_CALLED
    description: Variants called from alignments
  NORMALIZED:
    text: NORMALIZED
    description: Expression normalized (RNA-seq)
  ASSEMBLED:
    text: ASSEMBLED
    description: De novo assembled sequences
  ANNOTATED:
    text: ANNOTATED
    description: Functionally annotated sequences