Summary,GenoGAMDataSet-method {GenoGAM} | R Documentation

## Computing metrics

### Description

Computing metrics on each tile of the GenoGAMDataSet object. All metrics from the Summary generics group, as well as mean, var, sd, median, mad and IQR are supported.

### Usage

    ## S4 method for signature 'GenoGAMDataSet'
    Summary(x, ..., na.rm = FALSE)

    ## S4 method for signature 'GenoGAMDataSet'
    mean(x)

    ## S4 method for signature 'GenoGAMDataSet,ANY'
    var(x)

    ## S4 method for signature 'GenoGAMDataSet'
    sd(x)

    ## S4 method for signature 'GenoGAMDataSet'
    median(x)

    ## S4 method for signature 'GenoGAMDataSet'
    mad(x)

    ## S4 method for signature 'GenoGAMDataSet'
    IQR(x)

    ## S4 method for signature 'GenoGAMDataSetList'
    mean(x)

    ## S4 method for signature 'GenoGAMDataSetList,ANY'
    var(x)

    ## S4 method for signature 'GenoGAMDataSetList'
    sd(x)

    ## S4 method for signature 'GenoGAMDataSetList'
    median(x)

    ## S4 method for signature 'GenoGAMDataSetList'
    mad(x)

    ## S4 method for signature 'GenoGAMDataSetList'
    IQR(x)

### Arguments

`x` | A GenoGAMDataSet object
`...` | Additional arguments
`na.rm` | Should NAs be dropped. Otherwise the result is NA

### Value

A matrix with the specified metric computed per tile per column of the assay data.

### Author(s)

Georg Stricker georg.stricker@in.tum.de

### Examples

    ggd <- makeTestGenoGAMDataSet()
    sum(ggd)
    min(ggd)
    max(ggd)
    mean(ggd)
    var(ggd)
    sd(ggd)
    median(ggd)
    mad(ggd)
    IQR(ggd)

[Package GenoGAM version 2.4.0 Index]