compareMethods: Compare copy number calling methods

Description Usage Arguments Value Author(s) Examples

View source: R/compareMethods.R

Description

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

Usage

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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

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## 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)

ataudt/aneufinder documentation built on Nov. 21, 2018, 10:10 a.m.