group.FIA,proFIAset-method {proFIA} | R Documentation

## Group the peaks of an FIA acquisition.

### Description

Group the peaks in a FIA experiemnts by clustering under an estimated density based on the accuracy in ppm of the mass spectrometer.

### Usage

    ## S4 method for signature 'proFIAset'
    group.FIA(
      object,
      ppmGroup,
      solvar = FALSE,
      sleep = 0,
      dmzGroup = 5e-04,
      fracGroup = 0.5
    )

### Arguments

`object` | A proFIAset object.
`ppmGroup` | A ppm parameter giving the size of the windows considered, we recommend to use 0.5*ppm where ppm is the pp parameter of band detection in the `proFIAset` function.
`solvar` | Shall the group corresponding to solvent signal be kept. This in only useful if solvent signal have been conserved in the `findFIASignal` function.
`sleep` | If not 0 densities are plotted every `sleep` ms.
`dmzGroup` | A minimum mz deviation value which can be considered over the deviation in ppm if it is higher. This account for low mass deviation.
`fracGroup` | The minimum fraction of samples of a class required to make a group.

### Value

A proFIAset object with the `group` slot filled. See `proFIAset-class`.

### Examples

    if(require("plasFIA")){
    #proFIAset object is loaded
    data(plasSet)

    #Parameters are defined.
    ppm_group <- 1
    dmz_group <- 0.0005
    frac_group<-0.2

    plasSet<-group.FIA(plasSet,ppmGroup=ppm_group,fracGroup=frac_group,dmzGroup=dmz_group)
    plasSet
    }

[Package proFIA version 1.16.3 Index]