Man pages for cbioportalR
Browse and Query Clinical and Genomic Data from cBioPortal

available_clinical_attributesGet all available clinical attribute IDs for a study
available_gene_panelsGet Available Gene Panels For a Database
available_patientsGet All Patient IDs in a Study
available_profilesGet Available Genomic Profiles For a Study or Database
available_sample_listsGet All Sample Lists Available For a Study
available_samplesGet All Sample IDs in a Study
available_studiesGet Metadata on All Available Studies in a Database
cbioportalR-packagecbioportalR: Browse and Query Clinical and Genomic Data from...
cbp_apiCore function to retrieve data from cBioPortal API.
dot-get_clinical_by_list_itemGet clinical data by attribute, study ID and sample ID
dot-get_clinical_pat_by_list_itemGet clinical data by attribute, study ID and patient ID
dot-get_data_by_sampleInternal Function to Get Mutations/CNA/Fusion By Sample ID
dot-get_data_by_studyInternal Function to Get Mutations/CNA/Fusion By Study ID
get_aliasGet Gene Name Alias for a Given Hugo Symbol
get_cbioportal_tokenGet cBioPortal Access Token
get_clinical_by_patientGet clinical data by attribute, study ID and patient ID
get_clinical_by_sampleGet clinical data by attribute, study ID and sample ID
get_clinical_by_studyGet all available clinical data for a specified study
get_cna_by_sampleGet CNA By Sample ID
get_cna_by_studyGet CNA By Study
get_entrez_idGet Entrez Gene ID for a given set of Hugo Symbols
get_fusions_by_sampleGet Fusions By Sample ID
get_fusions_by_studyGet Fusions By Study
get_gene_panelRetrieve Genes Included For a Specified Panel ID
get_genesGet A List of Genes for a Specified Database
get_genetics_by_sampleGet All Genomic Information By Sample IDs
get_genetics_by_studyGet All Genomic Information By Study
get_hugo_symbolGet Hugo Symbol for a given set of Entrez IDs
get_mutations_by_sampleGet Mutations By Sample ID
get_mutations_by_studyGet Mutations By Study ID
get_panel_by_sampleGet Gene Panel by study ID and sample ID
get_samples_by_patientGet sample IDs for a given set of patient IDs
get_segments_by_sampleGet Copy Number Segmentation Data By Sample ID
get_segments_by_studyGet Copy Number Segmentation Data By Study
get_study_infoGet Metadata on All Available Studies in Database or a...
impact_gene_infoIMPACT Gene Meta Data
null-defaultDefault value for 'NULL'.
pipePipe operator
set_cbioportal_dbConnect to cBioPortal DB
test_cbioportal_dbTest the Database Connection Anytime During your R Session
cbioportalR documentation built on Oct. 6, 2023, 1:07 a.m.