omophub 1.3.0

New Features

Hierarchy get() method: New method to retrieve complete concept hierarchy (ancestors and descendants) in a single call with support for “flat” or “graph” visualization formats.
Vocabulary domain_stats() method: New method to get statistics for a specific domain within a vocabulary.
Vocabulary concept_classes() method: New method to list all available concept classes.
Added vocab_release parameter to concepts, mappings, relationships, and hierarchy methods for explicit vocabulary version pinning.
Added include_hierarchy parameter to concepts$get() and concepts$get_by_code().

API parameter naming: Updated to match OMOPHub API v1.3.0 specifications:
- limit → page_size for pagination
- vocabulary, domain → vocabulary_ids, domain_ids for filtering
- max_results → page_size for result limits
- relationship_type → relationship_ids for relationship filtering
- target_vocabularies → target_vocabulary (singular) in mappings
- vocabulary_id → vocabulary_ids (plural) in hierarchy methods
API simplifications: Several methods now have fewer parameters to match the simplified backend API:
- mappings$get(): Removed direction, include_indirect, standard_only, include_mapping_quality, include_synonyms, include_context, pagination
- domains$list(): Simplified to single include_stats parameter
- vocabularies$get(): Now takes only vocabulary_id
- vocabularies$domains(): Now takes no parameters
Batch limits: concepts$batch() maximum reduced from 1000 to 100 concepts per request.
Default changes:
- concepts$batch() standard_only default changed from FALSE to TRUE
- relationships$get() default page_size changed from 50 to 100

Added include_synonyms and include_relationships parameters to get_by_code() for retrieving concept synonyms and relationships in a single request.