compareMethods {AneuFinder} | R Documentation

## Compare copy number calling methods

### Description

Compare two sets of `aneuHMM` objects generated by different methods (see option `method` of `findCNVs`).

### Usage

    compareMethods(models1, models2)

### Arguments

`models1` | A list of `aneuHMM` objects or a character vector with files that contain such objects.
`models2` | A list of `aneuHMM` objects or a character vector with files that contain such objects. IDs of the models must match the ones in `models1`.

### Value

A data.frame with one column 'concordance' which gives the fraction of the genome that is called concordantly between both models.

### Author(s)

Aaron Taudt

### Examples

    ## Get a list of HMMs
    folder <- system.file("extdata", "primary-lung", "hmms", package="AneuFinderData")
    files <- list.files(folder, full.names=TRUE)
    ## Compare the models with themselves (non-sensical)
    df <- compareMethods(files, files)
    head(df)

[Package AneuFinder version 1.12.1 Index]