write2file {metabCombiner} | R Documentation

## Print metabCombiner Report to File.

### Description

Prints a `combinedTable` report to a file, specified by `file` argument. Output file has an empty line between each separate m/z group for ease of viewing.

### Usage

    write2file(object, file, sep = ",")

### Arguments

`object` | `metabCombiner` object or `combinedTable`
`file` | character string naming the output file path
`sep` | Character field separator. Values within each row are separated by this character.

### Value

no values returned

### Examples

    data(plasma30)
    data(plasma20)

    p30 <- metabData(plasma30, samples = "CHEAR")
    p20 <- metabData(plasma20, samples = "Red", rtmax = 17.25)
    p.comb <- metabCombiner(xdata = p30, ydata = p20, binGap = 0.0075)

    p.comb <- selectAnchors(p.comb, tolmz = 0.003, tolrtq = 0.3, windy = 0.02)
    p.comb <- fit_gam(p.comb, k = 20, iterFilter = 1)
    p.comb <- calcScores(p.comb, A = 90, B = 14, C = 0.5)
    p.comb <- labelRows(p.comb, maxRankX = 2, maxRankY = 2, remove = TRUE)

    ###using metabCombiner object as input
    write2file(p.comb, file = "plasma-combined.csv", sep = ",")

    ###using combinedTable report and feature data as input
    cTable <- cbind.data.frame(combinedTable(p.comb), featdata(p.comb))
    write2file(cTable, file = "plasma-combined.txt", sep = "\t")

[Package metabCombiner version 1.2.2 Index]