DNAtools: Tools for Analysing Forensic Genetic DNA Data
Version 0.1-22

Computationally efficient tools for comparing all pairs of profiles in a DNA database. The expectation and covariance of the summary statistic is implemented for fast computing. Routines for estimating proportions of close related individuals are available. The use of wildcards (also called F- designation) is implemented. Dedicated functions ease plotting the results.

Browse man pages Browse package API and functions Browse package files

AuthorTorben Tvedebrink <tvede@math.aau.dk> and James Curran <j.curran@auckland.ac.nz>. Mikkel Meyer Andersen <mikl@math.aau.dk> assisted on the multicore/CPU implementation.
Date of publication2017-02-11 01:25:56
MaintainerTorben Tvedebrink <tvede@math.aau.dk>
LicenseGPL (>= 2)
Version0.1-22
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("DNAtools")

Man pages

dbcollapse: Collapse m/p output to vector
dbcompare: Compare DNA profiles
dbExample: Simulated database with 1,000 individuals
dbsimulate: Simulate a DNA database
DNAtools-package: Tools for analysing forensic genetic DNA databases
estimatePD: Estimate the drop-out probability based on number of alleles
freqEst: Simple allele frequency estimation
noa: The exact distribution of the number of alleles in a m-person...
noaTabs: Computes the alpha_m variants and their weights.
pContrib: Compute the posterior probabilities for P(m|n0) for a given...
pContrib.locus: Compute the posterior probabilities for P(m|n0) for a given...
plot.dbcompare: Plots the summary matrix
plot.dbOptim: Plots the fitted object function for estimated familial...
print.dbcompare: Prints the summary matrix
print.dbOptim: Prints the results from optim.relatedness()
rarity: Expected value of cell counts in DNA database comparison
rarityVar: Covariance matrix of cell counts in DNA database comparison
relatedness: Estimate theta and the fraction of comparisons between close...

Functions

DNAtools Man page
DNAtools-package Man page
EE Source code
EE.list Source code
FPs Source code
Frare Source code
PNL Source code
PNdrop Source code
PNm.locus Source code
Pijk Source code
Pijkl Source code
Prob Source code
Ps Source code
RPs Source code Source code
Sa Source code
Sa.list Source code
Sa.noa Source code
Sab Source code
Sab.list Source code
Sab.listmat Source code
Sab.noa Source code
collapseSmallest Source code
compare Source code
countAlleles Source code
dbCats Source code
dbCollapse Man page Source code
dbCompare Man page Source code
dbExample Man page
dbExpect Man page Source code
dbSimulate Man page Source code
dbVariance Man page Source code
ek Source code
estimatePD Man page Source code
freqEst Man page Source code
gRec Source code
genRelated Source code
genRypeRec Source code
genTypeRec Source code
genUnrelatedRec Source code
induceRare Source code
lbind Source code
lines.dbOptim Man page Source code
locusrecur Source code
m2v Source code
mcompare Source code
mpcollapse Source code
noaTabs Man page Source code
num2pow Source code
optim.relatedness Man page Source code
p.numberofalleles Man page
pContrib Man page Source code
pContrib.locus Man page Source code
pNoA Man page Source code
permAll Source code
permSummary Source code
permSummary.noa Source code
plot.dbOptim Man page Source code
plot.dbcompare Man page Source code
points.dbOptim Man page Source code
pow2num Source code
print.dbOptim Man page Source code
print.dbcompare Man page Source code
prob Source code
rare Source code
rareVar Source code
score Source code Source code
up.tri Source code
updateAlpha Source code
varCollapse Source code
wildCollapse Source code

Files

inst
inst/doc
inst/doc/DNAtools.pdf
inst/doc/DNAtools.Rnw
src
src/DNTRare.h
src/profile.cpp
src/profile.h
src/mcompare.cpp
src/DNTRare.cpp
src/RcppExports.cpp
src/prob.cpp
NAMESPACE
data
data/dbExample.RData
R
R/dbcompare.R
R/variance.R
R/plot.R
R/rarity.R
R/score.R
R/optim.relatedness.R
R/prob.R
R/RcppExports.R
R/induceRare.R
R/simulate.R
R/freqEst.R
R/numberOfAlleles.R
R/rareallele.R
vignettes
vignettes/DNAtools.Rnw
vignettes/caucasianObsExp.pdf
MD5
build
build/vignette.rds
DESCRIPTION
man
man/relatedness.Rd
man/print.dbcompare.Rd
man/dbcollapse.Rd
man/dbExample.Rd
man/plot.dbOptim.Rd
man/pContrib.Rd
man/noaTabs.Rd
man/pContrib.locus.Rd
man/print.dbOptim.Rd
man/freqEst.Rd
man/dbcompare.Rd
man/estimatePD.Rd
man/DNAtools-package.Rd
man/rarityVar.Rd
man/dbsimulate.Rd
man/rarity.Rd
man/plot.dbcompare.Rd
man/noa.Rd
DNAtools documentation built on May 20, 2017, 12:54 a.m.