Function reference
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acc_cna - Copy number alteration data from ACC TCGA
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acc_mutation - Mutation data from ACC TCGA
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annotate_cna() - Annotate CNA
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annotate_mutations() - Annotate Mutations
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annotate_sv() - Annotate Structural Variants
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blca_cna - Copy number alteration data from Nonmuscle invasive bladder cancer patients (MSK Eur Urol 2017)
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blca_mutation - Mutation data from Nonmuscle invasive bladder cancer patients (MSK Eur Urol 2017)
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blca_sv - Mutation data from Nonmuscle invasive bladder cancer patients (MSK Eur Urol 2017)
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consequence_map - Consequence Map
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.clean_query_results() - Clean API Query Results
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.get_select_columns() - Helper to select columns for output of annotation functions
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.tumor_type_warning() - Warn if no tumor type annotation possible
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mutations_hgvsg - Generated mutation data
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names_df - Data Frame of Column Names
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output_dictionary - Output Dictionary
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recode_cna() - Internal function to recode numeric CNA alteration values to factor values
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rename_columns() - Rename columns from API results to work with gnomeR functions