spikeSummary {ChIPSeqSpike} | R Documentation

## Output dataset summary information

### Description

Output a table giving endogenous/exogenous scaling scores and read counts for each experiment contained in a dataset

### Usage

        spikeSummary(theObject)

    ## S4 method for signature 'Experiment'
    spikeSummary(theObject)
    ## S4 method for signature 'ExperimentLoaded'
    spikeSummary(theObject)
    ## S4 method for signature 'ChIPSeqSpikeDataset'
    spikeSummary(theObject)
    ## S4 method for signature 'ChIPSeqSpikeDatasetList'
    spikeSummary(theObject)
    ## S4 method for signature 'ChIPSeqSpikeDatasetBoost'
    spikeSummary(theObject)
    ## S4 method for signature 'ChIPSeqSpikeDatasetListBoost'
    spikeSummary(theObject)

### Arguments

`theObject` | `ChIPSeqSpike` dataset (see ?spikeDataset)

### Details

The rows represent an experiment (with corresponding input below) and the columns represent the endogenous scaling factor (endoScalFact), the exogenous scaling factor (exoScalFact), the number of reads aligned to the reference genome (endoCount) and the number of reads aligned to the exogenous genome (exoCount).

### Value

a matrix of information about each experiment

### Methods (by class)

- `Experiment`: Method for signature theObject = 'Experiment'

- `ExperimentLoaded`: Method for signature theObject = 'ExperimentLoaded'

- `ChIPSeqSpikeDataset`: Method for signature theObject= 'ChIPSeqSpikeDataset'

- `ChIPSeqSpikeDatasetBoost`: Method for signature theObject= 'ChIPSeqSpikeDatasetBoost'

- `ChIPSeqSpikeDatasetList`: Method for signature theObject= 'ChIPSeqSpikeDatasetList'

- `ChIPSeqSpikeDatasetListBoost`: Method for signature theObject= 'ChIPSeqSpikeDatasetListBoost'

### Author(s)

Nicolas Descostes

### See Also

`getRatio`

### Examples

    data("result_estimateScalingFactors")
    spikeSummary(csds)

[Package ChIPSeqSpike version 1.10.0 Index]