compareSegmentations: Function for comparing segmentation methods to a known truth

In snapCGH: Segmentation, normalisation and processing of aCGH data

Description

This function takes a SegList and compares the breakpoints indicated in other SegLists with this original one.

Usage

compareSegmentations(TrueSeg,offset = 0,...)

Arguments

TrueSeg	An object of class SegList which is scored against. Normally the output from simulateData.
offset	Integer value between 0 and 2 specifying how close (in number of clones) to a true breakpoint the segmentation method must be before it is scored.
...	One or more objects of class SegList. These are compared to TrueSeg.

Value

The method returns a list containing two matrices. The first of these, \$TPR, contains the true positive rate, whilst the second, \$FDR, holds the false discovery rate. Both of these matrices are arranged such that a row represents a segmentation method and each column is an array.

Author(s)

John Marioni and Mike Smith

snapCGH documentation built on Nov. 8, 2020, 5:31 p.m.