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Authentication

set_cbioportal_db()
Connect to cBioPortal DB
get_cbioportal_token()
Get cBioPortal Access Token
test_cbioportal_db()
Test the Database Connection Anytime During your R Session

Database Level

available_gene_panels()
Get Available Gene Panels For a Database
available_studies()
Get Metadata on All Available Studies in a Database
get_genes()
Get A List of Genes for a Specified Database
lookup_id()
Lookup all available information on what studies a sample ID or patient ID belongs to

Database or Study Level

available_profiles()
Get Available Genomic Profiles For a Study or Database
get_study_info()
Get Metadata on All Available Studies in Database or a Specified Study

Study Level

available_clinical_attributes()
Get all available clinical attribute IDs for a study
get_clinical_by_study()
Get all available clinical data for a specified study
get_mutations_by_study()
Get Mutations By Study ID
get_cna_by_study()
Get CNA By Study
get_fusions_by_study() get_structural_variants_by_study()
Get Fusions By Study
get_segments_by_study()
Get Copy Number Segmentation Data By Study
available_samples()
Get All Sample IDs in a Study
available_patients()
Get All Patient IDs in a Study
available_sample_lists()
Get All Sample Lists Available For a Study
get_genetics_by_study()
Get All Genomic Information By Study

Sample Level

get_clinical_by_sample()
Get clinical data by attribute, study ID and sample ID
get_mutations_by_sample()
Get Mutations By Sample ID
get_cna_by_sample()
Get CNA By Sample ID
get_fusions_by_sample() get_structural_variants_by_sample()
Get Fusions By Sample ID
get_segments_by_sample()
Get Copy Number Segmentation Data By Sample ID
get_genetics_by_sample()
Get All Genomic Information By Sample IDs
get_panel_by_sample()
Get Gene Panel by study ID and sample ID

Gene & Gene Panel Level

get_alias()
Get Gene Name Alias for a Given Hugo Symbol
get_entrez_id()
Get Entrez Gene ID for a given set of Hugo Symbols
get_gene_panel()
Retrieve Genes Included For a Specified Panel ID
get_hugo_symbol()
Get Hugo Symbol for a given set of Entrez IDs

Patient Level

get_samples_by_patient()
Get sample IDs for a given set of patient IDs
get_clinical_by_patient()
Get clinical data by attribute, study ID and patient ID

Data

impact_gene_info
IMPACT Gene Meta Data