oncoPrintISB: interactive interface to ComplexHeatmap oncoPrint with inputs...

In vjcitn/BiocOncoTK: Bioconductor components for general cancer genomics

interactive interface to ComplexHeatmap oncoPrint with inputs from ISB Cancer Genomics Cloud BigQuery back end

Description

interactive interface to ComplexHeatmap oncoPrint with inputs from ISB Cancer Genomics Cloud BigQuery back end

Usage

oncoPrintISB(bq)

Arguments

bq	an instance of BigQueryConnection-class authenticated for ISB Cancer Genomics Cloud access

Value

only used for side effect of running shiny app

Note

This function will start a shiny app and will generate queries to Google BigQuery tables representing TCGA.

Examples

if (interactive()) {
 bcode = Sys.getenv("CGC_BILLING")
 if (nchar(bcode)>0) {
  con <- DBI::dbConnect(bigrquery::bigquery(), project = "isb-cgc", 
       dataset = "tcga_201607_beta", billing = bcode)
  oncoPrintISB(con)
 }
}

vjcitn/BiocOncoTK documentation built on Feb. 14, 2023, 11:56 p.m.