ENCODEsamples {cTRAP} | R Documentation

## Sample of ENCODE samples

### Description

Sample of ENCODE samples obtained by running the following code:

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

    # Download samples based on filtered ENCODE metadata
    ENCODEsamples <- downloadENCODEsamples(ENCODEmetadata)

    # Get small subset of whole dataset
    filter <- ENCODEsamples[[1]]$expected_count > 0
    genes <- head(ENCODEsamples[[1]][filter, ])$gene_id
    for (k in seq(ENCODEsamples)) {
        ENCODEsamples[[k]] <- ENCODEsamples[[k]][
            ENCODEsamples[[k]]$gene_id
    }

[Package cTRAP version 1.0.3 Index]