deprecated.yaml

id: https://w3id.org/nmdc/deprecated
name: NMDC-Deprecated-Elements
title: NMDC Schema Deprecated Elements
description: Elements that have been deprecated over time, in the schema for National Microbiome Data Collaborative (NMDC).
license: https://creativecommons.org/publicdomain/zero/1.0/

prefixes:
  KEGG.COMPOUND: "https://bioregistry.io/kegg.compound:"
  SIO: http://semanticscience.org/resource/SIO_
  UniProtKB: "https://bioregistry.io/uniprot:"
  biolink: https://w3id.org/biolink/vocab/
  dcterms: http://purl.org/dc/terms/
  linkml: https://w3id.org/linkml/
  nmdc: https://w3id.org/nmdc/
  qud: http://qudt.org/1.1/schema/qudt#
  rdf: http://www.w3.org/1999/02/22-rdf-syntax-ns#
  schema: http://schema.org/
  wgs84: http://www.w3.org/2003/01/geo/wgs84_pos#
  OBI: http://purl.obolibrary.org/obo/OBI_
  skos: http://www.w3.org/2004/02/skos/core#
  COG: "https://bioregistry.io/cog:"
  EC: "https://bioregistry.io/eccode:"
  GO: http://purl.obolibrary.org/obo/GO_
  KEGG.ORTHOLOGY: "https://bioregistry.io/kegg.orthology:"
  KEGG.REACTION: "https://bioregistry.io/kegg.reaction:"
  KEGG_PATHWAY: "https://bioregistry.io/kegg.pathway:"
  MetaCyc: "https://bioregistry.io/metacyc.compound:"
  RHEA: "https://bioregistry.io/rhea:"
  SEED: "https://bioregistry.io/seed:"
  gold: "https://bioregistry.io/gold:"

default_prefix: nmdc
default_range: string

classes:

slots:
  omics_type:
    deprecated_element_has_exact_replacement: analyte_category
    deprecated: true
    description: The type of omics data
    examples:
      - value: metatranscriptome
      - value: metagenome