annotateDataList {TPP2D} | R Documentation

## Annotate imported data list using a config table

### Description

Annotate imported data list using a config table

### Usage

    annotateDataList(dataList, geneNameVar, configLong, intensityStr, fcStr)

### Arguments

`dataList` | list of datasets from different MS runs corresponding to a 2D-TPP dataset
`geneNameVar` | character string of the column name that describes the gene name of a given protein in the raw data files
`configLong` | long formatted data frame of a corresponding config table
`intensityStr` | character string indicating which columns contain raw intensities measurements
`fcStr` | character string indicating which columns contain the actual fold change values. Those column names containing the suffix `fcStr` will be regarded as containing fold change values.

### Value

data frame containing all data annotated by information supplied in the config table

### Examples

    data("config_tab")
    data("raw_dat_list")
    dataList <- import2dMain(configTable = config_tab,
                             data = raw_dat_list,
                             idVar = "protein_id",
                             fcStr = "rel_fc_",
                             addCol = "gene_name",
                             naStrs = NA,
                             intensityStr = "signal_sum_",
                             nonZeroCols = "qusm",
                             qualColName = "qupm")
    configLong <- configWide2Long(configWide = config_tab)
    annotateDataList(dataList = dataList,
                     geneNameVar = "gene_name",
                     configLong = configLong,
                     intensityStr = "signal_sum_",
                     fcStr = "rel_fc_")

[Package TPP2D version 1.4.1 Index]