omophub (version 1.1.0)

OMOPHubClient: OMOPHub API Client

Description

R6 class for interacting with the OMOPHub vocabulary service. Provides access to OHDSI ATHENA standardized medical vocabularies.

Value

A new OMOPHubClient object.

Active bindings

concepts

Access to concept operations.

search

Access to search operations.

vocabularies

Access to vocabulary operations.

domains

Access to domain operations.

hierarchy

Access to hierarchy operations.

relationships

Access to relationship operations.

mappings

Access to mapping operations.

Methods

Public methods

• OMOPHubClient$new()

• OMOPHubClient$print()

• OMOPHubClient$clone()

---

Method new()

Create a new OMOPHub client.

Usage

OMOPHubClient$new(
  api_key = NULL,
  base_url = NULL,
  timeout = 30,
  max_retries = 3,
  vocab_version = NULL
)

Arguments

api_key

API key for authentication. If not provided, reads from OMOPHUB_API_KEY environment variable or system keyring.

base_url

API base URL. Defaults to https://api.omophub.com/v1.

timeout

Request timeout in seconds. Defaults to 30.

max_retries

Maximum retry attempts for failed requests. Defaults to 3.

vocab_version

Optional vocabulary version (e.g., "2025.1"). If not specified, uses the latest version.

---

Method print()

Print client information.

Usage

OMOPHubClient$print()

---

Method clone()

The objects of this class are cloneable with this method.

Usage

OMOPHubClient$clone(deep = FALSE)

Arguments

deep

Whether to make a deep clone.

Details

The client provides access to these resources:

• concepts: Concept lookup and batch operations

• search: Basic and advanced concept search

• vocabularies: Vocabulary listing and details

• domains: Domain listing and concept filtering

• hierarchy: Ancestor and descendant navigation

• relationships: Concept relationships

• mappings: Concept mappings between vocabularies

Examples

if (FALSE) {
# Create client (uses OMOPHUB_API_KEY env var)
client <- OMOPHubClient$new()

# Or with explicit API key
client <- OMOPHubClient$new(api_key = "your_api_key")

# Search for concepts
results <- client$search$basic("diabetes")

# Get a specific concept
concept <- client$concepts$get(201826)

# Use specific vocabulary version
client <- OMOPHubClient$new(vocab_version = "2025.1")
}