tumNorSet {BiocOncoTK} | R Documentation

## create list with SEs for tumor and normal for a tumor/assay pairing

### Description

create list with SEs for tumor and normal for a tumor/assay pairing

### Usage

    tumNorSet(bq, code = "PRAD",
      assayDataTableName = pancan_longname("rnaseq"),
      assayValueFieldName = "normalized_count",
      assayFeatureName = "Entrez")

### Arguments

`bq` | a BigQuery connection
`code` | character(1) a TCGA tumor code, defaults to "PRAD" for prostate tumor
`assayDataTableName` | character(1) name of table in BigQuery
`assayValueFieldName` | character(1) field from which assay quantifications are retrieved
`assayFeatureName` | character(1) field from which assay feature names are retrieved

### Examples

    if (interactive()) {
     bqcon = try(pancan_BQ())
     if (!inherits(bqcon, "try-error")) {
       tn = tumNorSet(bqcon)
       tn
     }
    }

[Package BiocOncoTK version 1.5.1 Index]