createAutotuner {Autotuner} | R Documentation

## createAutotuner

### Description

This function will create a Autotuner used to extract ms2s.

### Usage

    createAutotuner(data_paths, runfile, file_col, factorCol)

### Arguments

`data_paths` | A string path pointing at data files to load in Autotuner.
`runfile` | A data.frame of sample metadata.
`file_col` | Character string of the column name of the column within the runfile that contains sample names.
`factorCol` | Character string of the column name of the column within the runfile that contains sample type factor.

### Value

This function returns an Autotuner object

### Examples

    library(mtbls2)
    rawPaths <- c(
    system.file("mzData/MSpos-Ex2-cyp79-48h-Ag-1_1-B,3_01_9828.mzData",
    package = "mtbls2"),
    system.file("mzData/MSpos-Ex2-cyp79-48h-Ag-2_1-B,4_01_9830.mzData",
    package = "mtbls2"),
    system.file("mzData/MSpos-Ex2-cyp79-48h-Ag-4_1-B,4_01_9834.mzData",
    package = "mtbls2"))

    metadata <- read.table(system.file(
    "a_mtbl2_metabolite_profiling_mass_spectrometry.txt", package = "mtbls2"),
    header = TRUE, stringsAsFactors = FALSE)
    metadata <- metadata[sub("mzData/", "",
    metadata$Raw.Spectral.Data.File) %in% basename(rawPaths),]

    Autotuner <- Autotuner::createAutotuner(rawPaths,
    metadata,
    file_col = "Raw.Spectral.Data.File",
    factorCol = "Factor.Value.genotype.")

[Package Autotuner version 1.0.1 Index]