Class: EmbeddingsV1

Vector embeddings version 1 for samples and entities. Enables similarity search and multi-modal analysis across samples.

DIMENSIONALITY: 256 dimensions (dim_0 through dim_255) INDEX: Sample IDs (nmdc:bsm-XX-XXXXXXXX format)

USAGE: For finding similar samples, compute cosine similarity between embedding vectors. Embeddings combine information from taxonomy, traits, abiotic factors, and biochemical features.

EXAMPLE IDs: - nmdc:bsm-11-3a6fv767 - nmdc:bsm-11-2hve6455 - nmdc:bsm-11-s8ktn043

URI: https://w3id.org/kbase/nmdc_core/EmbeddingsV1

classDiagram class EmbeddingsV1 click EmbeddingsV1 href "../EmbeddingsV1/" EmbeddingsV1 : __index_level_0__ EmbeddingsV1 : dim_0 EmbeddingsV1 : dim_255

Slots

Name	Cardinality and Range	Description	Inheritance
index_level_0	1 String	Sample identifier (biosample ID)	direct
dim_0	0..1 Float	First embedding dimension	direct
dim_255	0..1 Float	Last embedding dimension (256 total dimensions, 0-255)	direct

Identifier and Mapping Information

Annotations

property	value
source_table	embeddings_v1

Schema Source

from schema: https://w3id.org/kbase/nmdc_core

Mappings

Mapping Type	Mapped Value
self	https://w3id.org/kbase/nmdc_core/EmbeddingsV1
native	https://w3id.org/kbase/nmdc_core/EmbeddingsV1

LinkML Source

Direct

name: EmbeddingsV1
annotations:
  source_table:
    tag: source_table
    value: embeddings_v1
description: 'Vector embeddings version 1 for samples and entities. Enables similarity
  search and multi-modal analysis across samples.

  DIMENSIONALITY: 256 dimensions (dim_0 through dim_255) INDEX: Sample IDs (nmdc:bsm-XX-XXXXXXXX
  format)

  USAGE: For finding similar samples, compute cosine similarity between embedding
  vectors. Embeddings combine information from taxonomy, traits, abiotic factors,
  and biochemical features.

  EXAMPLE IDs: - nmdc:bsm-11-3a6fv767 - nmdc:bsm-11-2hve6455 - nmdc:bsm-11-s8ktn043'
from_schema: https://w3id.org/kbase/nmdc_core
attributes:
  __index_level_0__:
    name: __index_level_0__
    description: Sample identifier (biosample ID). Used as row index for embedding
      lookups.
    examples:
    - value: nmdc:bsm-11-3a6fv767
    - value: nmdc:bsm-11-2hve6455
    - value: nmdc:bsm-11-s8ktn043
    from_schema: https://w3id.org/kbase/nmdc_core
    rank: 1000
    identifier: true
    domain_of:
    - EmbeddingsV1
    range: string
    required: true
  dim_0:
    name: dim_0
    description: First embedding dimension
    examples:
    - value: '-0.1364271342754364'
    - value: '-0.2726755142211914'
    from_schema: https://w3id.org/kbase/nmdc_core
    rank: 1000
    domain_of:
    - EmbeddingsV1
    range: float
  dim_255:
    name: dim_255
    description: Last embedding dimension (256 total dimensions, 0-255)
    from_schema: https://w3id.org/kbase/nmdc_core
    rank: 1000
    domain_of:
    - EmbeddingsV1
    range: float

Induced

name: EmbeddingsV1
annotations:
  source_table:
    tag: source_table
    value: embeddings_v1
description: 'Vector embeddings version 1 for samples and entities. Enables similarity
  search and multi-modal analysis across samples.

  DIMENSIONALITY: 256 dimensions (dim_0 through dim_255) INDEX: Sample IDs (nmdc:bsm-XX-XXXXXXXX
  format)

  USAGE: For finding similar samples, compute cosine similarity between embedding
  vectors. Embeddings combine information from taxonomy, traits, abiotic factors,
  and biochemical features.

  EXAMPLE IDs: - nmdc:bsm-11-3a6fv767 - nmdc:bsm-11-2hve6455 - nmdc:bsm-11-s8ktn043'
from_schema: https://w3id.org/kbase/nmdc_core
attributes:
  __index_level_0__:
    name: __index_level_0__
    description: Sample identifier (biosample ID). Used as row index for embedding
      lookups.
    examples:
    - value: nmdc:bsm-11-3a6fv767
    - value: nmdc:bsm-11-2hve6455
    - value: nmdc:bsm-11-s8ktn043
    from_schema: https://w3id.org/kbase/nmdc_core
    rank: 1000
    identifier: true
    alias: __index_level_0__
    owner: EmbeddingsV1
    domain_of:
    - EmbeddingsV1
    range: string
    required: true
  dim_0:
    name: dim_0
    description: First embedding dimension
    examples:
    - value: '-0.1364271342754364'
    - value: '-0.2726755142211914'
    from_schema: https://w3id.org/kbase/nmdc_core
    rank: 1000
    alias: dim_0
    owner: EmbeddingsV1
    domain_of:
    - EmbeddingsV1
    range: float
  dim_255:
    name: dim_255
    description: Last embedding dimension (256 total dimensions, 0-255)
    from_schema: https://w3id.org/kbase/nmdc_core
    rank: 1000
    alias: dim_255
    owner: EmbeddingsV1
    domain_of:
    - EmbeddingsV1
    range: float