calcQuanLRcomparison {casesolver}R Documentation

calcQuanLRcomparison

Description

Function calculating LR using EuroForMix for remaining matches (from Step 1)

Usage

calcQuanLRcomparison(DBmix, DBref, matchlist, popFreq, kit, xiBW = 0,
  xiFW = 0, pC = 0.05, lambda = 0.01, threshT = 50, nDone = 4,
  maxC = 3, nContr = NULL, normalize = FALSE, minFreq = NULL)

Arguments

DBmix

A list with evidence information [[sample]][[loc]] = list(adata,hdata)

DBref

A (nR x nL) matrix with reference information. LIST not efficient

matchlist

A matrix with overview of what references are matches each of samples (SampleName,Reference,MAC)

popFreq

A list of allele frequencies for a given population.

kit

Used to model degradation. Must be one of the shortnames of kit: Returned by euroformix::getKit()

xiBW

Model parameter for Backward stutter. NULL indicates stutter model.

xiFW

Model parameter for Forward stutter. NULL indicates stutter model.

pC

A numeric for allele drop-in probability.

lambda

Parameter in modeled peak height shifted exponential model.

threshT

The detection threshold given.

nDone

Maximum number of random evaluations nlm-optimizing routing. Default is 4.

maxC

Maximum number of contributors possible to assume. Default is 3.

nContr

A vector of number of contributors for each of the row in the matchlist. If NULL (default), the max(nA)/2 rule is applied.

normalize

A boolean of whether normalization should be applied or not.

minFreq

The freq value included for new alleles. Default NULL is using min.observed in popFreq.


[Package casesolver version 1.8.2 Index]