readMzTabData_v0.9 {MSnbase} | R Documentation

## Read an 'mzTab' file

### Description

This function can be used to create a `"MSnSet"` by reading and parsing an `mzTab` file. The metadata section is always used to populate the `MSnSet`'s `experimentData` slot.

### Usage

    readMzTabData_v0.9(file, what = c("PRT", "PEP"), verbose = isMSnbaseVerbose())

### Arguments

`file` | A `character` with the `mzTab` file to be read in.
`what` | One of `"PRT"` or `"PEP"`, defining which of protein of peptide section should be parse. The metadata section, when available, is always used to populate the `experimentData` slot.
`verbose` | Produce verbose output.

### Value

An instance of class `MSnSet`.

### Author(s)

Laurent Gatto

### See Also

`writeMzTabData` to save an `"MSnSet"` as an `mzTab` file.

### Examples

    testfile <- "https://raw.githubusercontent.com/HUPO-PSI/mzTab/master/legacy/jmztab-1.0/examples/mztab_itraq_example.txt"

    prot <- readMzTabData_v0.9(testfile, "PRT")

    prot

    pep <- readMzTabData_v0.9(testfile, "PEP")

    pep

[Package MSnbase version 2.20.1 Index]