R Observatory: Metrics for dvir version 3.4.2

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

dvir

3.4.2Package record

Disaster Victim Identification

1packages depend

5Kdownloads / year

44.3%test coverage

13/13flavors OK

Overview

About

Maintained by Magnus Dehli VigelandCRAN page ↗GitHub ↗Issues ↗

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.

Changes in 3.4.2

New features

New function dviGridSize() calculates the number of combinations for joint analysis.
dviSolve() has a new argument maxAssign, used to skip joint analysis if too many combinations.
dviSolve() output now includes detailed timings for each step of the analysis.
The old parallelisation based on parallel/pbapply has been removed. A mirai-based replacement is planned for a future version. To avoid breaking existing code, the numCores argument remains in several functions, but is ignored with a warning.
README er partly rewritten, including worked examples of dviJoint() and the dviSolve() workflow.

Other

Updated dependencies for recent pedsuite releases, most notably pedtools >= 2.11.0.
Minor optimisations of several functions, including dviJoint(), pairwiseLR().
Fixed bugs in setPairing() and handling of missing pairings.
Improved robustness of plotDVI().
Brushed up the legacy function dviCompare().

Show all changes in 3.4.2Hide the rest of the changes in 3.4.2

Added a testthat test suite.

From NEWS.md in the release

Install

R (CRAN)pak (dev)Ubuntu (r2u)Fedora (COPR)openSUSE (OBS)

install.packages("dvir", repos = "https://cloud.r-project.org/")

Installs the current CRAN release. Prebuilt binaries on Windows and macOS.

if (!requireNamespace("pak", quietly = TRUE))
  install.packages("pak", repos = "https://cloud.r-project.org/")
pak::pak("magnusdv/dvir")

Development version from magnusdv/dvir. Installs pak first if it is not already available.

Release

# enable cranapt (r2u) if it is not already set up, then install
grep -rqs r2u.stat.illinois.edu /etc/apt/sources.list /etc/apt/sources.list.d/ \
  || curl -fsSL https://raw.githubusercontent.com/eddelbuettel/r2u/master/inst/scripts/add_cranapt_noble.sh | sudo bash
sudo apt install -y r-cran-dvir

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled. We list this channel from recorded r2u download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

bspm (used by r2u) also needs make: sudo apt install make

# enable the iucar/cran COPR if it is not already present, then install
ls /etc/yum.repos.d/*iucar*cran*.repo >/dev/null 2>&1 \
  || sudo dnf copr enable -y iucar/cran
sudo dnf install -y R-CRAN-dvir

RPMs from the iucar/cran COPR, rebuilt from CRAN.

For install.packages() integration in R, also: sudo dnf install R-CoprManager

# add the autoCRAN OBS repo (Tumbleweed) if it is missing, then install
zypper -q lr | grep -qi autoCRAN \
  || sudo zypper addrepo https://download.opensuse.org/repositories/devel:/languages:/R:/autoCRAN/openSUSE_Tumbleweed/devel:languages:R:autoCRAN.repo
sudo zypper install -y R-dvir

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed). We list this channel from recorded autoCRAN download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

Health

CRAN checks

13OK

CRAN check page ↗

Slowest check: 2.6 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 3.4.2

READMEYes · 1,174 wordsVignettesNoNEWSYes · 100% structured · mentions 3.4.2Citation fileYes · cites a publicationWebsitenot declared in DESCRIPTION

Help pages: 47 (1 internal)includes a package overview page
Examples that run: 93%43 run in a plain check · 2 only when donttest examples are enabled (R CMD check --as-cran) · 1 hold no code
Exported functions with examples: 100%
Documented parameters: 94%
Return-value docs: 94%
Help pages citing references: 2%

How these are measured

Downloads

5K

CRAN downloads in the past year

Rank #6,162 · ~14/day · ~416/mo

Releases R versions

Daily download trend is not available in this view yet.

54530 days

1.4K90 days

5K1 year

Compare downloads with other packages →

Also on101 r2u2 autocran

How downloads are counted

Repository

magnusdv/dvir ↗Account: magnusdv

3Stars

1Forks

2Open issues

1Open PRs

7Releases

633Commits

2Commit identities

dviforensic-geneticskinship-testingpedsuite

633 commits · Last activity 2026-10-19 · Default branch at 3.4.4, ahead of CRAN 3.4.2 (checked 2026-10-18)

Responsiveness

How these are sampled

PRs merged (all time): 100%
Median days to close, 50 most recently updated closed issues: 1
Median days to close, 50 most recently updated closed PRs: 0

Stars over time

2024-11-12 · 22026-07-07 · 3

How these are measured

PracticesBeta

4 development-tooling and community-health practices detected across 4 families in the upstream repository

Checks run against github.com/magnusdv/dvir on 2026-10-18.

Continuous integration (1)

GitHub Actions

Docs source (1)

README.Rmd

Reproducibility and dev environment (1)

data-raw/

Lint, format, editor (1)

RStudio project

How this is detected·Detection ruleset v3 (2026-09-26)

Dependencies

Declared dependencies

10 external dependencies (excludes base and recommended)

Installing dvir adds 19 packages (7 with compiled code, 4.2 MB of source tarballs). Heaviest: nanonext 911 KB, kinship2 484 KB, knitr 479 KB.

Depends (2)

R >= 4.2.0pedtools

Imports (6)

forrel mirai pedFamilias pedprobr ribd verbalisr

LinkingTo (0)

none

Suggests (3)

knitr rmarkdown testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

1direct

0indirect

Imports 1

Depends, Imports or LinkingTo, most downloaded first

pedsuite

How these are counted

Code & Tests

Datasets

People & History

People (2)

Magnus Dehli Vigeland

Author, Maintainer since 3.1.0 (2023)

Thore Egeland

Author

Previously maintained by Thore Egeland (2.0.0 to 3.0.1).

Releases (10)

Pick two releases to compare their code metrics.

3.4.2Latest
record
2026-06-30 · current release · diff ↗ ·
added 1 export
dviGridSize
3.4.1
record
2026-05-15 · diff ↗
R
R 4.6.0 released · 2026-04-24
3.4.0
record
2026-04-22 · diff ↗ ·
added 2 exports
addVictims, getDatabase
R
R 4.5.0 released · 2025-04-11
3.3.0
record
2024-09-09 · diff ↗ ·
removed 1 export
combineSummaries

added 3 exports
dviJoint, formatSummary, swapOrientation
R
R 4.4.0 released · 2024-04-24
3.2.1
record
2023-10-16 · diff ↗ ·
removed 1 export
summariseDVI

added 9 exports
amDrivenDVI, checkDVI, combineSummaries, dviSim, dviSolve, excludePairing, findNonidentifiable, getSimpleFams, setPairing
3.1.0
record
2023-10-03 · diff ↗ ·
added 1 export
plotUndisputed
3.0.1
record
2023-06-30 · diff ↗ ·
removed 1 export
setMutationModel

added 10 exports
compactJointRes, directMatch, dviData, familias2dvir, findExcluded, getFamily, mergePM, plotDVI, plotSolution, subsetDVI
R
R 4.3.0 released · 2023-04-21
2.2.0
record
2022-10-21 · diff ↗ ·
added 3 exports
exclusionMatrix, relabelDVI, summariseDVI
R
R 4.2.0 released · 2022-04-22
2.1.0
record
2021-05-18 · diff ↗
R
R 4.1.0 released · 2021-05-18
2.0.0
record
2021-03-29

Show 1 earlier eventHide 1 earlier event

R
R 4.0.0 released · 2020-04-24

Package metadata

First published: 2021-03-29
Total releases: 10 / 5 yrs
License: GPL-3 OSI
Minimum R: ≥ 4.2.0
Bundled data: 116 KB / 12 files
Download size: 226 KB

Cite

Cite this package

Run in R for the authors' entry:

citation("dvir")

The package provides a citation file, so citation() returns the authors' own entry.

It points to 10.1038/s41598-021-93071-5.

Cite the R Observatory

For a number measured here: a download total, a coverage figure, an archival date.

Format

APA

Balamuta, J. J. (2026). R Observatory: Metrics for dvir version 3.4.2 [Data set]. HJJB, LLC. Data release v2026-10-22. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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