ImportFameSettings {TargetSearch} | R Documentation

## Retention time markers settings

### Description

This function imports a list of retention standard markers.

### Usage

    ImportFameSettings(tmp.file = NA, mass = NA, ...)

### Arguments

`tmp.file` | A character string naming a file with standard markers.
`mass` | The m/z standard marker.
`...` | Other options passed to `read.delim` function.

### Details

The standard marker file is a tab-delimited text file with 3 or 4 columns. Column names doesn't matter. They must be in the following order.

- `LowerLimit` - The Retention time lower limit in seconds.

- `UpperLimit` - The Retention time upper limit in seconds.

- `RIstandard` - The RI value of that standard.

- `mass` - The m/z standard marker. This column is optional since it could be set by the `mass` parameter.

If no arguments are given, a default object will be returned.

### Value

A `tsRim` object.

### Author(s)

Alvaro Cuadros-Inostroza, Matthew Hannah, Henning Redestig

### See Also

`RIcorrect`, `tsRim`

### Examples

    # get the RI marker definition file
    cdfpath  <- file.path(find.package("TargetSearchData"), "gc-ms-data")
    rim.file <- file.path(cdfpath, "rimLimits.txt")

    # set the mass marker to 87
    mass <- 87

    # load the definition
    rimLimits <- ImportFameSettings(rim.file, mass = mass)

    # sometimes you need to change the limits of a particular standard
    rimLimits(rimLimits)[2,] <- c(410, 450)

    # to change the mass value
    rimMass(rimLimits) <- 85

[Package TargetSearch version 1.48.0 Index]