User-Friendly R Interface to Biologic Web Services' API
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Documentation for package ‘rbioapi’ version 0.8.1
Help Pages
-- R --
| rba_connection_test | Test if the Supported Services Are Responding |
| rba_enrichr | A One-step Wrapper for Gene-list Enrichment Using Enrichr |
| rba_enrichr_add_list | Upload Your Gene-List to Enrichr |
| rba_enrichr_enrich | Get Enrichr Enrichment Results |
| rba_enrichr_gene_map | Find Enrichr Terms That Contain a Given Gene |
| rba_enrichr_libs | Retrieve a List of available libraries from Enrichr |
| rba_enrichr_view_list | View an Uploaded Gene List |
| rba_jaspar_collections | List collections available in JASPAR |
| rba_jaspar_collections_matrices | List matrices available in a JASPAR collection |
| rba_jaspar_matrix | Get a Position Frequency Matrices (PFM) with annotations |
| rba_jaspar_matrix_search | Search matrix profiles available in JASPAR |
| rba_jaspar_matrix_versions | List matrix profile versions associated with a base ID |
| rba_jaspar_releases | Get information about JASPAR database releases |
| rba_jaspar_sites | Get binding sites of a matrix profile |
| rba_jaspar_species | List available species in JASPAR |
| rba_jaspar_species_matrices | List matrices available in JASPAR of a species |
| rba_jaspar_taxons | List available taxonomic groups in JASPAR |
| rba_jaspar_taxons_matrices | List matrices available in JASPAR of a taxonomic group |
| rba_jaspar_tffm | Get a TF flexible models (TFFMs) information |
| rba_jaspar_tffm_search | Search TF flexible models (TFFMs) available in JASPAR |
| rba_mieaa_cats | Get Supported Enrichment Categories for a Species and miRNA Type |
| rba_mieaa_convert_type | Convert Between Mature and precursor miRNA Accession |
| rba_mieaa_convert_version | Convert miRNA accession Between Different miRBase Versions |
| rba_mieaa_enrich | A One-step Wrapper for miRNA Enrichment Using miEAA |
| rba_mieaa_enrich_results | Retrieve Results of a finished Enrichment Analysis from miEAA |
| rba_mieaa_enrich_status | Check Status of a Submitted Enrichment Analysis in miEAA |
| rba_mieaa_enrich_submit | Submit miEAA miRNA Enrichment Analysis Request |
| rba_options | Set rbioapi Global Options |
| rba_pages | Get Multiple Pages of a Paginated Resource |
| rba_panther_enrich | PANTHER Over-Representation Enrichment Analysis |
| rba_panther_family | Get PANTHER Families and Sub-Families |
| rba_panther_homolog | Search PANTHER for Homologs of Gene(s) |
| rba_panther_info | Get PANTHER database Information |
| rba_panther_mapping | Map A Gene-set to PANTHER Database |
| rba_panther_ortholog | Search PANTHER for Orthologs of Gene(s) |
| rba_panther_tree_grafter | PANTHER Tree Grafter Use this function to retrieve a PANTHER family's tree topology information with a node corresponding to your sequence grafted in the best location in that tree. |
| rba_reactome_analysis | Reactome Over-Representation or Expression Analysis |
| rba_reactome_analysis_download | Download Different Reactome Analysis Results |
| rba_reactome_analysis_import | Import Saved Analysis JSON to Reactome |
| rba_reactome_analysis_mapping | Maps Molecule Identifiers |
| rba_reactome_analysis_pdf | Generate PDF file with Reactome Analysis Results |
| rba_reactome_analysis_species | Compare Human Pathways with with Other Species |
| rba_reactome_analysis_token | Return the Results Associated with a Token |
| rba_reactome_complex_list | Get Complexes That Include a Molecule |
| rba_reactome_complex_subunits | Get a Complex's Subunits |
| rba_reactome_diseases | Reactome Diseases |
| rba_reactome_entity_other_forms | Get Other forms of a Reactome Entity |
| rba_reactome_event_ancestors | Get Reactome Events Ancestors |
| rba_reactome_event_hierarchy | Get Full Event Hierarchy of a Species |
| rba_reactome_exporter_diagram | Get a Reactome Event Diagram |
| rba_reactome_exporter_event | Exports A Reactome Event to SBGN or SBML |
| rba_reactome_exporter_overview | Get a Reactome Pathway Overview |
| rba_reactome_exporter_reaction | Get a Reactome Reaction Event |
| rba_reactome_interactors_psicquic | The interface From Reactome to PSICQUIC |
| rba_reactome_interactors_static | Get Static(IntAct) Interaction Information of a Protein |
| rba_reactome_mapping | Map External ID to Reactome Pathways/Reactions |
| rba_reactome_orthology | Get Orthologous (Computationally Inferred) Events |
| rba_reactome_participants | Get Participants of a Reactome Event |
| rba_reactome_participant_of | Get Larger Reactome Structures Which Include an Entity |
| rba_reactome_pathways_events | Get Events Contained in an Upstream Events |
| rba_reactome_pathways_low | Get lower level pathways Containing a 'Physical Entity' or Event |
| rba_reactome_pathways_top | Get Top Level Pathways in a Species |
| rba_reactome_people_id | A person by his identifiers |
| rba_reactome_people_name | Get Persons Information by Name |
| rba_reactome_query | Query and Retrieve any Reactome knowledge-base Object |
| rba_reactome_species | Get Reactome Species |
| rba_reactome_version | The version number of current database |
| rba_reactome_xref | Map Cross References IDs to Reactome ReferenceEntity |
| rba_string_annotations | Retrieving Functional Annotation |
| rba_string_enrichment | Getting Functional Enrichment |
| rba_string_enrichment_ppi | Get Protein-Protein Interaction Enrichment |
| rba_string_homology_inter | Get Similarity Scores Hits of Proteins in Different Species |
| rba_string_homology_intra | Get Similarity Scores Hits of Proteins in a Species |
| rba_string_interactions_network | Get STRING Network Interactions |
| rba_string_interaction_partners | Get All STRING Interaction Partners |
| rba_string_map_ids | Map a Set of Identifiers to STRING Identifiers |
| rba_string_network_image | Get STRING Network Image |
| rba_string_version | Get Current STRING Version |
| rba_uniprot_antigens | Get Antigens by UniProt Accession |
| rba_uniprot_antigens_search | Search Antigens in UniProt |
| rba_uniprot_coordinates | Get Genomic Coordinates of a Protein |
| rba_uniprot_coordinates_location | Search UniProt entries by taxonomy and genomic coordinates |
| rba_uniprot_coordinates_search | Search Genomic Coordinates of UniProt entries |
| rba_uniprot_coordinates_sequence | Get Genome coordinate by Protein Sequence position |
| rba_uniprot_features | Get UniProt protein sequence features by accession |
| rba_uniprot_features_search | UniProt maintains sequence annotations (features) that describe regions in the protein sequence. Using this function, you can search and retrieve UniProt proteins' sequence annotations (features). you may also refine your search query with variety of modifiers. |
| rba_uniprot_genecentric | Get Gene-Centric proteins by UniProt Accession |
| rba_uniprot_genecentric_search | Search Gene-Centric Proteins |
| rba_uniprot_mutagenesis | Get Mutagenesis by UniProt Accession |
| rba_uniprot_mutagenesis_search | Search Mutagenesis in UniProt |
| rba_uniprot_proteins | Get UniProt entry by accession |
| rba_uniprot_proteins_crossref | Get UniProt Entry by UniProt Cross-Reference Database and ID |
| rba_uniprot_proteins_search | Search UniProt entries |
| rba_uniprot_proteomes | Get proteome by proteome/proteins UPID |
| rba_uniprot_proteomes_search | Search Proteomes in UniProt |
| rba_uniprot_proteomics | Get Proteomics Peptides Mapped to UniProt Protein |
| rba_uniprot_proteomics_search | Search Proteomics Peptides in UniProt |
| rba_uniprot_ptm | Get Post-Translational Modification of UniProt Protein |
| rba_uniprot_ptm_search | Search Post-Translational Modification in UniProt |
| rba_uniprot_taxonomy | Get UniProt Taxonomy Nodes |
| rba_uniprot_taxonomy_lca | Get Lowest Common Ancestor (LCA) of Two Taxonomy Nodes |
| rba_uniprot_taxonomy_lineage | Get Taxonomic Lineage |
| rba_uniprot_taxonomy_name | Search UniProt Taxonomic Names |
| rba_uniprot_taxonomy_path | Traverse UniProt Taxonomic Tree Path |
| rba_uniprot_taxonomy_relationship | Get Shortest Path Between Two Taxonomy Nodes |
| rba_uniprot_uniparc | Get UniParc entry |
| rba_uniprot_uniparc_bestguess | Get UniParc Longest Sequence for Entries |
| rba_uniprot_uniparc_search | Search UniParc Entries |
| rba_uniprot_uniparc_sequence | Get UniParc Entries by Sequence |
| rba_uniprot_variation | Get natural variants in UniProt by NIH-NCBI SNP database identifier |
| rba_uniprot_variation_search | Search UniProt Natural Variants |