gdcClinicalMerge {GDCRNATools}R Documentation

Merge clinical data

Description

Merge clinical data in .xml files that are downloaded from GDC to a dataframe

Usage

gdcClinicalMerge(path, key.info = TRUE, organized = FALSE)

Arguments

path

path to downloaded files for merging

key.info

logical, whether to return the key clinical information only. If TRUE, only clinical information such as age, stage, grade, overall survial, etc. will be returned

organized

logical, whether the clinical data have already been organized into a single folder (eg., data downloaded by the 'GenomicDataCommons' method are already organized). Default is FALSE.

Value

A dataframe of clinical data with rows are patients and columns are clinical traits

Author(s)

Ruidong Li and Han Qu

Examples

####### Merge clinical data #######
path <- 'Clinical/'
## Not run: clinicalDa <- gdcClinicalMerge(path=path, key.info=TRUE)

[Package GDCRNATools version 1.4.0 Index]