prepareENCODEgeneExpression {cTRAP} | R Documentation

## Load ENCODE gene expression data

### Description

Load ENCODE gene expression data

### Usage

    prepareENCODEgeneExpression(samples)

### Arguments

`samples` | List of loaded ENCODE samples

### Value

Data frame containing gene read counts

### See Also

`convertGeneIdentifiers()`

Other functions related with using ENCODE expression data: `downloadENCODEknockdownMetadata()`, `loadENCODEsamples()`, `performDifferentialExpression()`

### Examples

    if (interactive()) {
      # Load ENCODE metadata for a specific cell line and gene
      cellLine <- "HepG2"
      gene <- "EIF4G1"
      ENCODEmetadata <- downloadENCODEknockdownMetadata(cellLine, gene)

      # Load samples based on filtered ENCODE metadata
      ENCODEsamples <- loadENCODEsamples(ENCODEmetadata)[[1]]

      prepareENCODEgeneExpression(ENCODEsamples)
    }

[Package cTRAP version 1.12.0 Index]