Package index
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set_cbioportal_db()
- Connect to cBioPortal DB
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get_cbioportal_token()
- Get cBioPortal Access Token
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test_cbioportal_db()
- Test the Database Connection Anytime During your R Session
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available_gene_panels()
- Get Available Gene Panels For a Database
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available_studies()
- Get Metadata on All Available Studies in a Database
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get_genes()
- Get A List of Genes for a Specified Database
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lookup_id()
- Lookup all available information on what studies a sample ID or patient ID belongs to
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available_profiles()
- Get Available Genomic Profiles For a Study or Database
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get_study_info()
- Get Metadata on All Available Studies in Database or a Specified Study
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available_clinical_attributes()
- Get all available clinical attribute IDs for a study
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get_clinical_by_study()
- Get all available clinical data for a specified study
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get_mutations_by_study()
- Get Mutations By Study ID
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get_cna_by_study()
- Get CNA By Study
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get_fusions_by_study()
get_structural_variants_by_study()
- Get Fusions By Study
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get_segments_by_study()
- Get Copy Number Segmentation Data By Study
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available_samples()
- Get All Sample IDs in a Study
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available_patients()
- Get All Patient IDs in a Study
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available_sample_lists()
- Get All Sample Lists Available For a Study
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get_genetics_by_study()
- Get All Genomic Information By Study
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get_clinical_by_sample()
- Get clinical data by attribute, study ID and sample ID
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get_mutations_by_sample()
- Get Mutations By Sample ID
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get_cna_by_sample()
- Get CNA By Sample ID
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get_fusions_by_sample()
get_structural_variants_by_sample()
- Get Fusions By Sample ID
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get_segments_by_sample()
- Get Copy Number Segmentation Data By Sample ID
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get_genetics_by_sample()
- Get All Genomic Information By Sample IDs
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get_panel_by_sample()
- Get Gene Panel by study ID and sample ID
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get_alias()
- Get Gene Name Alias for a Given Hugo Symbol
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get_entrez_id()
- Get Entrez Gene ID for a given set of Hugo Symbols
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get_gene_panel()
- Retrieve Genes Included For a Specified Panel ID
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get_hugo_symbol()
- Get Hugo Symbol for a given set of Entrez IDs
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get_samples_by_patient()
- Get sample IDs for a given set of patient IDs
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get_clinical_by_patient()
- Get clinical data by attribute, study ID and patient ID
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impact_gene_info
- IMPACT Gene Meta Data