create.likelihood.vectors.peaks: likeLTD::create.likelihood.vectors.peaks

In likeLTD: Tools to Evaluate DNA Profile Evidence

Description

Creates an objective function for peak height data

Usage

create.likelihood.vectors.peaks(hypothesis, addAttr=FALSE, 
likeMatrix=FALSE, diagnose=FALSE,...)

Arguments

hypothesis	Hypothesis for which to create the objective function
addAttr	Whether to add attributes to the objective functions. There are two attributes: (1) “hypothesis” referencing the input hypothesis, (ii) ‘functions’ containing the individual objective functions per Locus. The latter contain further attributes.
likeMatrix	Whether to return likelihoods for every genotype combination, or a likelihood summed over all genotypes after optimisation. Set to TRUE for individual genotype likelihoods. This is used for get.likely.genotypes.peaks.
diagnose	Logical. If TRUE returns a list of peak heights, estimated mean peak height and peak height standard deviation for each genotype combination. This can be used to obtain Z values for each fitted peak.
...	Any named parameter to modify the hypothesis, e.g. nUnknowns

Details

The objective function is created from the hypothesis. Itself, it takes as arguments the nuisance parameters and, optionally, the parameters for the penalty function. This particular flavor of the objective returns a list containing two items: (i) the likelihoods per locus, (ii) the penalties per locus.

Value

A function

See Also

get.likely.genotypes.peaks, penalties.peaks, Objective Functions

likeLTD documentation built on May 1, 2019, 7:58 p.m.