dviSolve(), which now uses the generalised likelihood ratio (GLR) for identifications in families with more than one missing person.dviJoint(), swapOrientation() and formatSummary(), all used in dviSolve().plotDVI() now allows multiple AM rows, and has a new (experimental) argument style for choosing colouring style.dviSim() may now do multiple simulations, and gains an argument conditional. If TRUE, references are kept unchanged, while the missing persons are simulated conditional on these.fire.pedFamilias::readFam().pbapply. Use pblapply() in dviJoint().directMatch() is much faster than before, when called from mergePM().dvi-example.fam as a system file. Hence avoid internet download during example (gave CRAN error).dviSolve() implementing a complete pipeline for solving a DVI case.amDrivenDVI() implementing AM-driven analysis.setPairing() and excludePairing() for manually fixing or disallowing certain pairings.findUndisputed() replace argument relax with its negation strict, and reverse the default to be strict = FALSE.dviSim() for simulating marker data onto a DVI dataset.findNonidentifiable().checkDVI().mergePM() gains argument verbose.consolidateDVI().findExcluded() and exclusionMatrix().cat() instead of message() throughout.summariseDVI() (replaced by print.dviData()).findUndisputed() miscounted steps if verbose = F.jointDVI() sometimes dropped victims after findUndisputed().The dvir package is now maintained by Magnus D Vigeland.
In print.dviData(), add info on sex of victims/missing.
Add report to output of findExcluded().
New function plotUndisputed().
Version 3.0.0 constitutes a major rewrite of dvir, with many new features reflecting a broader scope of the package. Furthermore,
the syntax has been greatly simplified, due to the new dviData container class for DVI datasets.
It should be noted that these syntax changes are not backwards compatible.
Most functions of dvir now expects a dviData object as input.
All datasets have been regenerated as dviData objects.
Datasets from the book Mass Identifications (Kling, Egeland, Tillmar, Prieto) have been renamed with prefix KETP.
summariseDVI() is deprecated in favour of the new print() method for dviData objects.
As of version 3.0.0, dvir requires R >= 4.1.0 and recent versions of pedtools, forrel and pedprobr.
New S3 class dviData, and constructor with syntax dviData(pm, am, missing).
New function plotDVI() for visualising DVI datasets.
New function relabelDVI() greatly simplifying relabelling tasks.
New function findExcluded() for identifying victim samples not matching any of the missing persons - and vice versa.
New functions directMatch() and mergePM() for analysing and merging victim samples coming from the same individual.
New function plotSolution() helps visualising the output of jointDVI().
New function getFamily() for extracting the family name (or index) of missing persons.
New internal function consolidateDVI() ensures well-formed datasets. This is called in the beginning of all major functions.
New function compactJointRes() simplifies the output of jointRes().
New function familias2dvir() for parsing .fam files written by the DVI module of Familias.
sequentialDVI() has more informative output, in sync with findUndisputed(). While these functions do almost the same thing, the latter is generally preferred in practice.
jointDVI() gains arguments nkeep and maxAssign. The latter triggers a gracefully exit if the number of assignments is too large.
jointDVI() now has a progress bar (but only when numCores = 1).