check_compData_results {compcodeR} | R Documentation

## Check the validity of a `compData` result object

### Description

Check the validity of a `compData` object containing differential expression results. An object that passes the check can be used as the input for the method comparison functions in `compcodeR`.

### Usage

    check_compData_results(object)

### Arguments

`object` | A `compData` object

### Author(s)

Charlotte Soneson

### Examples

    tmpdir <- normalizePath(tempdir(), winslash = "/")
    mydata <- generateSyntheticData(dataset = "mydata", n.vars = 1000,
                                    samples.per.cond = 5, n.diffexp = 100,
                                    output.file = file.path(tmpdir, "mydata.rds"))
    ## Check an object without differential expression results
    check_compData_results(mydata)

    runDiffExp(data.file = file.path(tmpdir, "mydata.rds"),
               result.extent = "voom.limma",
               Rmdfunction = "voom.limma.createRmd",
               output.directory = tmpdir, norm.method = "TMM")
    resdata <- readRDS(file.path(tmpdir, "mydata_voom.limma.rds"))
    ## Check an object containing differential expression results
    check_compData_results(resdata)

[Package compcodeR version 1.20.1 Index]