Interface to the 'PubChem' Database for Chemical Data Retrieval

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Documentation for package ‘PubChemR’ version 3.0.0

• DESCRIPTION file

Help Pages

AIDs	Assay, Compound, and Substance Identifiers
AIDs-SIDs-CIDs	Assay, Compound, and Substance Identifiers
AIDs.PubChemInstance_AIDs	Assay, Compound, and Substance Identifiers
CIDs	Assay, Compound, and Substance Identifiers
CIDs.PubChemInstance_CIDs	Assay, Compound, and Substance Identifiers
download	Download Content from PubChem and Save to a File
get_aids	Retrieve Assay IDs (AIDs) from PubChem
get_all_sources	Retrieve All Sources from PubChem
get_assays	Retrieve Assays from PubChem
get_biological_test_results	Retrieve "Biological Test Results" Section from PubChem Contents
get_cids	Retrieve Compound IDs (CIDs) from PubChem
get_compounds	Retrieve Compounds from PubChem
get_properties	Retrieve Compound Properties from PubChem
get_pug_rest	Retrieve Data from PubChem PUG REST API
get_pug_view	Retrieve PUG View Data from PubChem
get_sdf	Retrieve/Save SDF Data from PubChem
get_sids	Retrieve Substance IDs (SIDs) from PubChem
get_substances	Retrieve Substances from PubChem
get_synonyms	Retrieve Synonyms from PubChem
has_hits	Check Whether Queries Returned Hits
instance	Retrieve Information for Requested Instances
instance.PubChemInstanceList	Retrieve Information for Requested Instances
pc_activity_matrix	Build an Assay Activity Matrix
pc_activity_outcome_map	Harmonize Activity Outcome Labels
pc_assay	Query Assay Records via the Next-Generation API
pc_assay_activity_long	Convert PubChem Assay Summary to Long Activity Table
pc_batch	Batch-Orchestrate PubChem Workflows
pc_benchmark	Benchmark Chunked PubChem Workflows
pc_benchmark_harness	Benchmark Harness for Scale Scenarios
pc_cache_clear	Clear PubChemR Request Cache
pc_cache_info	Cache Diagnostics for PubChemR
pc_capabilities	Inspect Next-Generation Workflow Capabilities
pc_collect	Collect Results From an Async PubChem Query
pc_compound	Query Compound Records via the Next-Generation API
pc_config	Configure PubChemR Next-Gen API Defaults
pc_cross_domain_join	Join Compound, Substance, Assay, and Target Tables
pc_example_assaysummary_payload	Example Assay Summary Payload for Next-Generation Workflows
pc_example_feature_table	Example Feature Table for Next-Generation Modeling Workflows
pc_export_model_data	Export Model-Ready Data
pc_feature_table	Build a Modeling-Ready Feature Table
pc_identifier_map	Map Identifiers via the Next-Generation API
pc_lifecycle_policy	Versioning and Deprecation Policy
pc_model_matrix	Convert Feature Tables to Model Matrix Form
pc_poll	Poll an Asynchronous PubChem ListKey
pc_profile	Apply a Predefined Execution Profile
pc_property	Query Compound Properties via the Next-Generation API
pc_request	Unified Transport Layer for PubChem Requests
pc_response	Normalize an HTTP Response Into a Typed PubChem Result
pc_resume_batch	Resume a Checkpointed Batch Workflow
pc_sdq_bioactivity	Retrieve Full Biological Test Results from PubChem SDQ
pc_similarity_search	Similarity-Driven Identifier Search
pc_submit	Submit an Asynchronous PubChem Query
pc_substance	Query Substance Records via the Next-Generation API
pc_to_chemminer	Convert PubChem Tables to ChemmineR SDF Objects
pc_to_rcdk	Convert PubChem Tables to rcdk Molecules
property_map	Retrieve Compound Properties from PubChem
pubChemData	Retrieve Raw Data from PUG REST Object
pubChemData.PugRestInstance	Retrieve Raw Data from PUG REST Object
PubChemR-classes	'PubChemInstanceList' and 'PubChemInstance' Classes
PugView-classes	Classes for Pug View Request
request_args	Retrieve Function Inputs
retrieve	Retrieve Information from PubChem Instances
retrieve.PC_Substance	Retrieve Information from PubChem Instances
retrieve.PubChemInstance	Retrieve Information from PubChem Instances
retrieve.PubChemInstanceList	Retrieve Information from PubChem Instances
retrieve.PubChemResult	Retrieve Information from PubChem Instances
retrieve.PugViewInstance	Retrieve Information from PubChem Instances
retrieve.PugViewSection	Retrieve Information from PubChem Instances
section	Extract Sections from Pug View Request
section.PugViewInstance	Extract Sections from Pug View Request
section.PugViewSection	Extract Sections from Pug View Request
section.PugViewSectionList	Extract Sections from Pug View Request
sectionList	List Available Section/Subsections
sectionList.PugViewInstance	List Available Section/Subsections
sectionList.PugViewSection	List Available Section/Subsections
sectionList.PugViewSectionList	List Available Section/Subsections
SIDs	Assay, Compound, and Substance Identifiers
SIDs.PubChemInstance_SIDs	Assay, Compound, and Substance Identifiers
synonyms	Getter function for 'Synonyms'
synonyms.PubChemInstance_Synonyms	Getter function for 'Synonyms'