tpptrTidyUpESets {TPP} | R Documentation

## Tidy up expressionSets

### Description

Convert list of expressionSets (intermediate output of several TPP-TR functions) to tidy tables.

### Usage

    tpptrTidyUpESets(tppESetList, returnType = "exprs")

### Arguments

`tppESetList` | A list of expressionSets, returned by most TPP-TR functions.
`returnType` | A string with two possible values: "exprs", "featureData".

### Details

expressionSet lists are for example produced by `tpptrImport`, `tpptrNormalize`, `tpptrCurveFit`.

### Value

Either the fold changes per protein across all experiments (if `returnType = "exprs"`), or the additional annotation per protein and experiment (if `returnType = "featureData"`). For example, the peptide counts per identified protein can be found here.

### Examples

    data(hdacTR_smallExample)
    tpptrData <- tpptrImport(configTable = hdacTR_config, data = hdacTR_data)
    concentrations <- tpptrTidyUpESets(tpptrData)
    additionalInfos <- tpptrTidyUpESets(tpptrData, returnType = "featureData")
    summary(concentrations)

[Package TPP version 3.20.1 Index]