ct.buildSE {gCrisprTools} | R Documentation

## Package Screen Data into a 'SummarizedExperiment' Object

### Description

Convenience function to package major components of a screen into a 'SummarizedExperiment' container for downstream visualization and analysis. All arguments are optional except for 'es'.

### Usage

    ct.buildSE(
      es,
      sampleKey = NULL,
      ann = NULL,
      vm = NULL,
      fit = NULL,
      summaryList = NULL
    )

### Arguments

`es` | An 'ExpressionSet' of screen data. Required.
`sampleKey` | a gCrisprTools 'sampleKey' object, to be added to the 'colData'.
`ann` | Annotation object to be packaged into the 'rowData'
`vm` | A 'voom'-derived normalized object
`fit` | a 'MArrayLM' object containing the contrast information and model results
`summaryList` | A named list of `data.frame`s, returned by `ct.generateResults`. if you need to generate one of these by hand for some reason, see the example `resultsDF` object loaded in the example below.

### Value

A 'SummarizedExperiment' object.

### Author(s)

Russell Bainer

### Examples

    data('ann', 'es', 'fit', 'resultsDF')
    ct.buildSE(es, ann = ann, fit = 'fit', summaryList = list('resA' = resultsDF, 'resB' = resultsDF))

[Package gCrisprTools version 1.18.0 Index]