famMix: Likelihood for mixtures with related contributors based on...

In euroMixR: Calculations for DNA mixtures, only R code

Description

Likelihood for mixtures with related contributors based on Familias. For a general description of the problem, see paraMix. As opposed to paraMix this function uses the R version of Familias for likelihood calculation and therefore theta-correction, mutation models and silent allele frequencies (but not X-chromosomes or simulation) are accomodated.

Usage

famMix(x, R, id.U, id.V = NULL, partialmarker = NULL, theta = 0, mutationRateFemale = 0, mutationRateMale = 0, mutationModelFemale = "stable", mutationModelMale = "stable", mutationRangeFemale = 0.1, mutationRangeMale = 0.1, silentFrequency = 0,check=TRUE)

Arguments

x	linkdat object.
R	Integers, mixture.
id.U	List of unknown contributors (e.g.,suspect(s)).
id.V	Integers indicating typed non-contributors.
partialmarker	A marker object.
theta	Real in [0,1]
mutationRateFemale	See AddAlleleSystem.
mutationRateMale	See AddAlleleSystem.
mutationModelFemale	See AddAlleleSystem.
mutationModelMale	See AddAlleleSystem.
mutationRangeFemale	See AddAlleleSystem.
mutationRangeMale	See AddAlleleSystem.
silentFrequency	Real in [0,1].
check	If TRUE check of input is performed and calculations stop if they are likely to take too much time.

Details

See paraMix.

Value

x	linkdat object updated with genotypes of missing individuals specified by id.U
likelihod	The likelood Pr(R,T,V|H)
allLikelihoods	Terms adding to above Pr(R,T,V|H)

Author(s)

Thore Egeland <[e-mail]>

References

Egeland et al (2013)

See Also

paraMix

Examples

#Example
require(paramlink)
require(Familias)

euroMixR documentation built on May 2, 2019, 4:54 p.m.