EICparams {Autotuner} | R Documentation

## EICparams

### Description

This function is designed to calculate the recommended parameters from EIC peaks. It is the main holder function for a lot of different ones involved in calculating EIC parameters.

### Usage

    EICparams(
      Autotuner,
      massThresh,
      useGap = TRUE,
      varExpThresh = 0.8,
      returnPpmPlots = TRUE,
      plotDir = ".",
      verbose = TRUE
    )

### Arguments

`Autotuner` | An Autotuner objected containing sample specific raw data.
`massThresh` | A generous exact mass error threshold used to estimate PPM for features.
`useGap` | Parameter carried into checkEICPeaks that tells Autotuner whether to use the gap statustic to determine the proper number of clusters to use during ppm parameter estimation.
`varExpThresh` | Numeric value representing the variance explained threshold to use if useGap is false.
`returnPpmPlots` | A boolean value that tells R to return plots for ppm distributions.
`plotDir` | Path where to store plots.
`verbose` | Boolean value used to indicate whether checkEICPeaks function returns messages to the console.

### Details

The function CheckEICPeaks handles all the peak specific computations.

### Value

A data.frame of all peak specific estimates.

[Package Autotuner version 1.2.0 Index]