Package: dvir 3.4.1.9000

Magnus Dehli Vigeland

dvir: Disaster Victim Identification

Joint DNA-based disaster victim identification (DVI), as described in Vigeland and Egeland (2021) <doi:10.21203/rs.3.rs-296414/v1>. Identification is performed by optimising the joint likelihood of all victim samples and reference individuals. Individual identification probabilities, conditional on all available information, are derived from the joint solution in the form of posterior pairing probabilities. 'dvir' is part of the 'pedsuite' collection of packages for pedigree analysis.

Authors:Magnus Dehli Vigeland [aut, cre], Thore Egeland [aut]

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manual.pdf |manual.html✨
card.svg |card.png
dvir/json (API)
NEWS

# Install 'dvir' in R:
install.packages('dvir', repos = c('https://magnusdv.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/magnusdv/dvir/issues

Datasets:

On CRAN:

Conda:

dviforensic-geneticskinship-testingpedsuite

4.88 score 3 stars 1 packages 21 scripts 768 downloads 1 mentions 35 exports 20 dependencies

Last updated from:1daf09ae12. Checks:7 WARNING, 2 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-devel-x86_64WARNING174
source / vignettesOK186
linux-release-x86_64WARNING134
macos-release-arm64WARNING99
macos-oldrel-arm64WARNING92
windows-develWARNING127
windows-releaseWARNING106
windows-oldrelWARNING105
wasm-releaseOK118

Exports:addVictimsamDrivenDVIBmarginalcheckDVIcompactJointResdirectMatchdviComparedviDatadviJointdviSimdviSolveexcludePairingexclusionMatrixexpand.grid.nodupfamilias2dvirfindExcludedfindNonidentifiablefindUndisputedformatSummarygeneratePairingsgetDatabasegetFamilygetSimpleFamsjointDVImergePMncombpairwiseLRplotDVIplotSolutionplotUndisputedrelabelDVIsequentialDVIsetPairingsubsetDVIswapOrientation

Dependencies:evaluateforrelgluehighrkinship2knitrlatticelpSolveMatrixpbapplypedFamiliaspedmutpedprobrpedtoolsquadprogribdslamverbalisrxfunyaml

Readme and manuals

Help Manual

Help pageTopics
Add victim samples to a DVI datasetaddVictims
AM-driven DVIamDrivenDVI
Posterior pairing probabilitiesBmarginal
Direct match LRdirectMatch
Compare DVI approachesdviCompare
DVI datacheckDVI dviData
Finds Generalised Likelihood Ratios (GLRs)dviGLR
Joint DVI searchdviJoint
Simulate genotypes in a DVI datasetdviSim
A complete workflow for solving a DVI casedviSolve
DVI dataset: Generational trioexample1
DVI dataset: Two reference familiesexample2
Exclude pairingsexcludePairing
Dataset: Exclusion exampleexclusionExample
Combinations without duplicationsexpand.grid.nodup gridSize
Convert a Familias file to DVI datafamilias2dvir
Excluded individuals and pairings in a DVI datasetexclusionMatrix findExcluded
Nonidentifiable missing personsfindNonidentifiable
Undisputed identifications in a DVI problemfindUndisputed
DVI dataset: Family of fire victimsfire
Format final summary tableformatSummary
Sex-consistent pairingsgeneratePairings
Extract the marker database from a DVI datasetgetDatabase
Get AM component of selected individualsgetFamily
Find the simple families of a DVI datasetgetSimpleFams
DVI dataset: Family gravegrave
DVI dataset: A large reference pedigreeicmp
Joint DVI analysiscompactJointRes jointDVI
Data used in the book Kling et al. (2021)KETPchap481
Data used in the book Kling et al. (2021)KETPchap484
Data used in the book Kling et al. (2021)KETPexer497
Data used in the book Kling et al. (2021)KETPexer498
Identity and merge matching PM samplesmergePM
The total a priori number of assignments in a DVI problemncomb
Pairwise LR matrixpairwiseLR
DVI dataset: Simulated plane crashplanecrash
Plot a DVI problemplotDVI
Plot DVI solutionplotSolution
Plot undisputed identificationsplotUndisputed
Automatic labelling of a DVI datasetrelabelDVI
Sequential DVI searchsequentialDVI
Set identifications manuallysetPairing
Extract a subset of a DVI datasetsubsetDVI
Swap orientation of an assignment tableswapOrientation
Dataset: Symmetry examplessymmetricSibs