Class: Bin

URI: img_mysql_mbin:Bin

classDiagram class Bin click Bin href "../Bin/" Bin : avg_coverage Bin : bin_add_date Bin : bin_class Bin : bin_created_by Bin : bin_domain Bin : bin_family Bin : bin_genus Bin : bin_methods Bin : bin_oid Bin : bin_order Bin : bin_phylum Bin : bin_quality Bin : bin_species Bin : completeness Bin : contamination Bin : gene_count Bin : gtdbtk_class Bin : gtdbtk_domain Bin : gtdbtk_family Bin : gtdbtk_genus Bin : gtdbtk_order Bin : gtdbtk_phylum Bin : gtdbtk_species Bin : num_16s Bin : num_23s Bin : num_5s Bin : num_trna Bin : scaffold_count Bin : taxon_oid Bin : total_base

Slots

Name	Cardinality and Range	Inheritance
bin_oid	0..1 String	direct
taxon_oid	0..1 Integer	direct
bin_domain	0..1 String	direct
bin_phylum	0..1 String	direct
bin_class	0..1 String	direct
bin_order	0..1 String	direct
bin_family	0..1 String	direct
bin_genus	0..1 String	direct
bin_species	0..1 String	direct
completeness	0..1 Float	direct
contamination	0..1 Float	direct
total_base	0..1 Integer	direct
gene_count	0..1 Integer	direct
bin_quality	0..1 String	direct
gtdbtk_domain	0..1 String	direct
gtdbtk_phylum	0..1 String	direct
gtdbtk_class	0..1 String	direct
gtdbtk_order	0..1 String	direct
gtdbtk_family	0..1 String	direct
gtdbtk_genus	0..1 String	direct
gtdbtk_species	0..1 String	direct
bin_add_date	0..1 Datetime	direct
bin_methods	0..1 String	direct
bin_created_by	0..1 Integer	direct
num_16s	0..1 Integer	direct
num_5s	0..1 Integer	direct
num_23s	0..1 Integer	direct
num_trna	0..1 Integer	direct
scaffold_count	0..1 Integer	direct
avg_coverage	0..1 Float	direct

Identifier and Mapping Information

Schema Source

from schema: https://w3id.org/jgi/img_mysql_mbin

Mappings

Mapping Type	Mapped Value
self	img_mysql_mbin:Bin
native	img_mysql_mbin:Bin

LinkML Source

Direct

name: bin
from_schema: https://w3id.org/jgi/img_mysql_mbin
attributes:
  bin_oid:
    name: bin_oid
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    domain_of:
    - bin
    - bin_coverage
    - bin_scaffolds
    - semi_bin
    - semi_bin_coverage
    - semi_bin_scaffolds
    - semi_lq
    range: string
    required: false
  taxon_oid:
    name: taxon_oid
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    domain_of:
    - bin
    - ebin
    - ebin_not_loaded_metagenomes
    - img_umag_bin_tarballs_02062024
    - not_loaded_metagenomes
    - semi_bin
    - semi_bin_not_loaded
    - semi_ebin
    - semi_ebin_not_loaded
    - semi_lq
    range: integer
    required: false
  bin_domain:
    name: bin_domain
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    domain_of:
    - bin
    - semi_bin
    range: string
    required: false
  bin_phylum:
    name: bin_phylum
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    domain_of:
    - bin
    - semi_bin
    range: string
    required: false
  bin_class:
    name: bin_class
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    domain_of:
    - bin
    - semi_bin
    range: string
    required: false
  bin_order:
    name: bin_order
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    domain_of:
    - bin
    - semi_bin
    range: string
    required: false
  bin_family:
    name: bin_family
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    domain_of:
    - bin
    - semi_bin
    range: string
    required: false
  bin_genus:
    name: bin_genus
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    domain_of:
    - bin
    - semi_bin
    range: string
    required: false
  bin_species:
    name: bin_species
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    domain_of:
    - bin
    - semi_bin
    range: string
    required: false
  completeness:
    name: completeness
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    domain_of:
    - bin
    - ebin
    - semi_bin
    - semi_ebin
    range: float
    required: false
  contamination:
    name: contamination
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    domain_of:
    - bin
    - ebin
    - semi_bin
    - semi_ebin
    range: float
    required: false
  total_base:
    name: total_base
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    domain_of:
    - bin
    - semi_bin
    range: integer
    required: false
  gene_count:
    name: gene_count
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    domain_of:
    - bin
    - bin_scaffolds
    - semi_bin
    - semi_bin_scaffolds
    range: integer
    required: false
  bin_quality:
    name: bin_quality
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    domain_of:
    - bin
    - semi_bin
    range: string
    required: false
  gtdbtk_domain:
    name: gtdbtk_domain
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    domain_of:
    - bin
    - semi_bin
    range: string
    required: false
  gtdbtk_phylum:
    name: gtdbtk_phylum
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    domain_of:
    - bin
    - semi_bin
    range: string
    required: false
  gtdbtk_class:
    name: gtdbtk_class
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    domain_of:
    - bin
    - semi_bin
    range: string
    required: false
  gtdbtk_order:
    name: gtdbtk_order
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    domain_of:
    - bin
    - semi_bin
    range: string
    required: false
  gtdbtk_family:
    name: gtdbtk_family
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    domain_of:
    - bin
    - semi_bin
    range: string
    required: false
  gtdbtk_genus:
    name: gtdbtk_genus
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    domain_of:
    - bin
    - semi_bin
    range: string
    required: false
  gtdbtk_species:
    name: gtdbtk_species
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    domain_of:
    - bin
    - semi_bin
    range: string
    required: false
  bin_add_date:
    name: bin_add_date
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    domain_of:
    - bin
    - semi_bin
    range: datetime
    required: false
  bin_methods:
    name: bin_methods
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    domain_of:
    - bin
    - not_loaded_metagenomes
    - semi_bin
    - semi_bin_not_loaded
    range: string
    required: false
  bin_created_by:
    name: bin_created_by
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    domain_of:
    - bin
    - not_loaded_metagenomes
    - semi_bin
    - semi_bin_not_loaded
    range: integer
    required: false
  num_16s:
    name: num_16s
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    domain_of:
    - bin
    - semi_bin
    range: integer
    required: false
  num_5s:
    name: num_5s
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    domain_of:
    - bin
    - ebin
    - ebin_scaffolds
    - semi_bin
    - semi_ebin
    - semi_ebin_scaffolds
    range: integer
    required: false
  num_23s:
    name: num_23s
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    domain_of:
    - bin
    - semi_bin
    range: integer
    required: false
  num_trna:
    name: num_trna
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    domain_of:
    - bin
    - semi_bin
    range: integer
    required: false
  scaffold_count:
    name: scaffold_count
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    domain_of:
    - bin
    - ebin
    - semi_bin
    - semi_ebin
    range: integer
    required: false
  avg_coverage:
    name: avg_coverage
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    domain_of:
    - bin
    - bin_coverage
    - ebin
    - semi_bin
    - semi_bin_coverage
    - semi_ebin
    range: float
    required: false

Induced

name: bin
from_schema: https://w3id.org/jgi/img_mysql_mbin
attributes:
  bin_oid:
    name: bin_oid
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    alias: bin_oid
    owner: bin
    domain_of:
    - bin
    - bin_coverage
    - bin_scaffolds
    - semi_bin
    - semi_bin_coverage
    - semi_bin_scaffolds
    - semi_lq
    range: string
    required: false
  taxon_oid:
    name: taxon_oid
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    alias: taxon_oid
    owner: bin
    domain_of:
    - bin
    - ebin
    - ebin_not_loaded_metagenomes
    - img_umag_bin_tarballs_02062024
    - not_loaded_metagenomes
    - semi_bin
    - semi_bin_not_loaded
    - semi_ebin
    - semi_ebin_not_loaded
    - semi_lq
    range: integer
    required: false
  bin_domain:
    name: bin_domain
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    alias: bin_domain
    owner: bin
    domain_of:
    - bin
    - semi_bin
    range: string
    required: false
  bin_phylum:
    name: bin_phylum
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    alias: bin_phylum
    owner: bin
    domain_of:
    - bin
    - semi_bin
    range: string
    required: false
  bin_class:
    name: bin_class
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    alias: bin_class
    owner: bin
    domain_of:
    - bin
    - semi_bin
    range: string
    required: false
  bin_order:
    name: bin_order
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    alias: bin_order
    owner: bin
    domain_of:
    - bin
    - semi_bin
    range: string
    required: false
  bin_family:
    name: bin_family
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    alias: bin_family
    owner: bin
    domain_of:
    - bin
    - semi_bin
    range: string
    required: false
  bin_genus:
    name: bin_genus
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    alias: bin_genus
    owner: bin
    domain_of:
    - bin
    - semi_bin
    range: string
    required: false
  bin_species:
    name: bin_species
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    alias: bin_species
    owner: bin
    domain_of:
    - bin
    - semi_bin
    range: string
    required: false
  completeness:
    name: completeness
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    alias: completeness
    owner: bin
    domain_of:
    - bin
    - ebin
    - semi_bin
    - semi_ebin
    range: float
    required: false
  contamination:
    name: contamination
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    alias: contamination
    owner: bin
    domain_of:
    - bin
    - ebin
    - semi_bin
    - semi_ebin
    range: float
    required: false
  total_base:
    name: total_base
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    alias: total_base
    owner: bin
    domain_of:
    - bin
    - semi_bin
    range: integer
    required: false
  gene_count:
    name: gene_count
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    alias: gene_count
    owner: bin
    domain_of:
    - bin
    - bin_scaffolds
    - semi_bin
    - semi_bin_scaffolds
    range: integer
    required: false
  bin_quality:
    name: bin_quality
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    alias: bin_quality
    owner: bin
    domain_of:
    - bin
    - semi_bin
    range: string
    required: false
  gtdbtk_domain:
    name: gtdbtk_domain
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    alias: gtdbtk_domain
    owner: bin
    domain_of:
    - bin
    - semi_bin
    range: string
    required: false
  gtdbtk_phylum:
    name: gtdbtk_phylum
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    alias: gtdbtk_phylum
    owner: bin
    domain_of:
    - bin
    - semi_bin
    range: string
    required: false
  gtdbtk_class:
    name: gtdbtk_class
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    alias: gtdbtk_class
    owner: bin
    domain_of:
    - bin
    - semi_bin
    range: string
    required: false
  gtdbtk_order:
    name: gtdbtk_order
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    alias: gtdbtk_order
    owner: bin
    domain_of:
    - bin
    - semi_bin
    range: string
    required: false
  gtdbtk_family:
    name: gtdbtk_family
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    alias: gtdbtk_family
    owner: bin
    domain_of:
    - bin
    - semi_bin
    range: string
    required: false
  gtdbtk_genus:
    name: gtdbtk_genus
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    alias: gtdbtk_genus
    owner: bin
    domain_of:
    - bin
    - semi_bin
    range: string
    required: false
  gtdbtk_species:
    name: gtdbtk_species
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    alias: gtdbtk_species
    owner: bin
    domain_of:
    - bin
    - semi_bin
    range: string
    required: false
  bin_add_date:
    name: bin_add_date
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    alias: bin_add_date
    owner: bin
    domain_of:
    - bin
    - semi_bin
    range: datetime
    required: false
  bin_methods:
    name: bin_methods
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    alias: bin_methods
    owner: bin
    domain_of:
    - bin
    - not_loaded_metagenomes
    - semi_bin
    - semi_bin_not_loaded
    range: string
    required: false
  bin_created_by:
    name: bin_created_by
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    alias: bin_created_by
    owner: bin
    domain_of:
    - bin
    - not_loaded_metagenomes
    - semi_bin
    - semi_bin_not_loaded
    range: integer
    required: false
  num_16s:
    name: num_16s
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    alias: num_16s
    owner: bin
    domain_of:
    - bin
    - semi_bin
    range: integer
    required: false
  num_5s:
    name: num_5s
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    alias: num_5s
    owner: bin
    domain_of:
    - bin
    - ebin
    - ebin_scaffolds
    - semi_bin
    - semi_ebin
    - semi_ebin_scaffolds
    range: integer
    required: false
  num_23s:
    name: num_23s
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    alias: num_23s
    owner: bin
    domain_of:
    - bin
    - semi_bin
    range: integer
    required: false
  num_trna:
    name: num_trna
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    alias: num_trna
    owner: bin
    domain_of:
    - bin
    - semi_bin
    range: integer
    required: false
  scaffold_count:
    name: scaffold_count
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    alias: scaffold_count
    owner: bin
    domain_of:
    - bin
    - ebin
    - semi_bin
    - semi_ebin
    range: integer
    required: false
  avg_coverage:
    name: avg_coverage
    from_schema: https://w3id.org/jgi/img_mysql_mbin
    rank: 1000
    alias: avg_coverage
    owner: bin
    domain_of:
    - bin
    - bin_coverage
    - ebin
    - semi_bin
    - semi_bin_coverage
    - semi_ebin
    range: float
    required: false