# GenoGAMDataSet-metrics: Computing metrics In GenoGAM: A GAM based framework for analysis of ChIP-Seq data

## 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

 ``` 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38``` ```## 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 [email protected]

## Examples

 ``` 1 2 3 4 5 6 7 8 9 10``` ```ggd <- makeTestGenoGAMDataSet() sum(ggd) min(ggd) max(ggd) mean(ggd) var(ggd) sd(ggd) median(ggd) mad(ggd) IQR(ggd) ```

GenoGAM documentation built on Dec. 7, 2018, 6 p.m.