gdcRNAMerge {GDCRNATools} | R Documentation

## Merge RNA/miRNAs raw counts data

### Description

Merge raw counts data that is downloaded from GDC to a single expression matrix

### Usage

    gdcRNAMerge(metadata, path, data.type, organized = FALSE)

### Arguments

`metadata` | metadata parsed from `gdcParseMetadata`
`path` | path to downloaded files for merging
`data.type` | one of `'RNAseq'` and `'miRNAs'`
`organized` | logical, whether the raw counts 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 or numeric matrix of raw counts data with rows are genes or miRNAs and columns are samples

### Author(s)

Ruidong Li and Han Qu

### Examples

    ####### Merge RNA expression data #######
    metaMatrix <- gdcParseMetadata(project.id='TARGET-RT',
        data.type='RNAseq')
    ## Not run: rnaExpr <- gdcRNAMerge(metadata=metaMatrix, path='RNAseq/',
        data.type='RNAseq')
    ## End(Not run)

[Package GDCRNATools version 1.14.0 Index]