normMethods {NormalyzerDE} | R Documentation

## Perform normalizations on Normalyzer dataset

### Description

Perform normalizations on Normalyzer dataset

### Usage

    normMethods(nds, forceAll = FALSE, normalizeRetentionTime = TRUE,
      quiet = FALSE, rtStepSizeMinutes = 1, rtWindowMinCount = 100,
      rtWindowShifts = 1, rtWindowMergeMethod = "mean",
      noLogTransform = FALSE)

### Arguments

`nds` | Normalyzer dataset object.
`forceAll` | Force all methods to run despite not qualifying for thresholds.
`normalizeRetentionTime` | Perform retention time based normalization methods.
`quiet` | Prevent diagnostic output
`rtStepSizeMinutes` | Retention time normalization window size.
`rtWindowMinCount` | Minimum number of datapoints in each retention-time segment.
`rtWindowShifts` | Number of layered retention time normalized windows.
`rtWindowMergeMethod` | Merge approach for layered retention time windows.
`noLogTransform` | Per default NormalyzerDE performs a log-transformation on the input data. If not needed, specify this option

### Value

Returns Normalyzer results object with performed analyzes assigned as attributes

### Examples

    data(example_summarized_experiment)
    normObj <- getVerifiedNormalyzerObject("job_name", example_summarized_experiment)
    normResults <- normMethods(normObj)

[Package NormalyzerDE version 1.2.0 Index]