getDataClinical: getDataClinical

In GeneSurvey/TCGAGeneReport: Access to Gene Report Data

Description

Get a matrix of clinical data. Rownames are patient ids. Colnames are data names. Colnames will vary depending on data from Standardized Data.

Usage

getDataClinical(theZipFile="/rsrch1/bcb/batcheffects/GENE_REPORT/GeneSurvey.zip", theVerboseFlag = FALSE)

Arguments

theZipFile	Default: For DQS Servers. If you are on a server where the GENE_REPORT directory is on a different path, you can pass in a value to override the default of "/rsrch1/bcb/batcheffects/GENE_REPORT/GeneSurvey.zip". NOTE: This is a subdirectory of the main GENE_REPORT directory.
theVerboseFlag	Default: FALSE. TRUE means write all output, which can be very verbose.

Value

Get a matrix of clinical data. Rownames are patient ids. Colnames are data names.

Examples

##---- Should be DIRECTLY executable !! ----
##-- ==>  Define data, use random,
##--	or do  help(data=index)  for the standard data sets.

## The function is currently defined as
function (theZipFile="/rsrch1/bcb/batcheffects/GENE_REPORT/GeneSurvey.zip", 
    theVerboseFlag = FALSE) 
{
    getDataClinical_internal(theZipFile, theVerboseFlag = theVerboseFlag)
  }

GeneSurvey/TCGAGeneReport documentation built on May 6, 2019, 6:27 p.m.