A Comprehensive Interface for Accessing the Protein Data Bank


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Documentation for package ‘rPDBapi’ version 2.1

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add_property Add or Merge Properties for RCSB PDB Data Fetching
autoresolve_sequence_type Automatically Determine the Sequence Type
ChemicalOperator Create a Chemical Search Operator for SMILES/InChI Descriptors
ComparisonOperator Create a Comparison Search Operator
ContainsPhraseOperator Create a Contains Phrase Search Operator
ContainsWordsOperator Create a Contains Words Search Operator
data_fetcher Fetch RCSB PDB Data Based on Specified Criteria
DefaultOperator Create a Default Search Operator
describe_chemical Describe Chemical Compound from RCSB PDB
ExactMatchOperator Create an Exact Match Search Operator
ExistsOperator Create an Existence Search Operator
fetch_data Fetch Data from RCSB PDB Using a JSON Query
find_papers Search for and Retrieve Paper Titles from PDB
find_results Retrieve Specific Fields for Search Results from RCSB PDB
generate_json_query Generate a JSON Query for RCSB PDB Data Retrieval
get_fasta_from_rcsb_entry Retrieve FASTA Sequence from PDB Entry or Specific Chain
get_info Retrieve Information for a Given PDB ID
get_pdb_api_url Generate a PDB API URL
get_pdb_file Download and Process PDB Files from the RCSB Database
handle_api_errors Handle API Errors
infer_search_service Infer the Appropriate Search Service for RCSB PDB Queries
InOperator Create an Inclusion Search Operator
parse_fasta_text_to_list Helper Function: Parse FASTA Text to List Grouped by Header
parse_response Parse API Response
perform_search Perform a Search in the RCSB PDB
QueryGroup Create a Grouped Query Object for RCSB PDB Searches
QueryNode Create a Query Node for RCSB PDB Searches
query_search Search Query Function
RangeOperator Create a Range Search Operator
RequestOptions Define Request Options for RCSB PDB Search Queries
return_data_as_dataframe Convert RCSB PDB Response Data into a Dataframe
ScoredResult Create a Scored Result Object for PDB Searches
search_graphql Perform a GraphQL Query to RCSB PDB
send_api_request Send API Request to a Specified URL
SeqMotifOperator Create a Sequence Motif Operator for RCSB PDB Searches
SequenceOperator Create a Sequence Operator for Sequence-Based Searches
StructureOperator Create a Structure Operator for Structure-Based Searches
walk_nested_dict Recursively Walk Through a Nested Dictionary