R Observatory: Metrics for mvSLOUCH version 2.7.7

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

mvSLOUCH

2.7.7Package record

Multivariate Stochastic Linear Ornstein-Uhlenbeck Models for Phylogenetic Comparative Hypotheses

1packages dependsuggested by 2

6Kdownloads / year

40.8%test coverage

13/13flavors OK

Overview

About

Maintained by Krzysztof BartoszekCRAN page ↗

Fits multivariate Ornstein-Uhlenbeck types of models to continues trait data from species related by a common evolutionary history. See K. Bartoszek, J, Pienaar, P. Mostad, S. Andersson, T. F. Hansen (2012) doi:10.1016/j.jtbi.2012.08.005 and K. Bartoszek, and J. Tredgett Clarke, J. Fuentes-Gonzalez, V. Mitov, J. Pienaar, M. Piwczynski, R. Puchalka, K. Spalik, K. L. Voje (2024) doi:10.1111/2041-210X.14376. The suggested PCMBaseCpp package (which significantly speeds up the likelihood calculations) can be obtained from https://github.com/venelin/PCMBaseCpp/.

Install

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

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

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

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-mvslouch

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-mvSLOUCH

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-mvSLOUCH

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: 5.1 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 2.7.7

READMENoVignettesYes · 1 · dynamicNEWSNoCitation fileYes · cites a publicationWebsitenot declared in DESCRIPTION

Help pages: 22 (1 internal)includes a package overview page
Examples that run: 100%21 run in a plain check
Exported functions with examples: 100%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 91%

Vignettes (1)

Getting started

How these are measured

Downloads

6K

CRAN downloads in the past year

Rank #6,264 · ~16/day · ~500/mo

Releases R versions

Daily download trend is not available in this view yet.

62230 days

1.3K90 days

6K1 year

Compare downloads with other packages →

Also on90 r2u6 autocran

How downloads are counted

Dependencies

Declared dependencies

12 external dependencies (excludes base and recommended)

Installing mvSLOUCH adds 29 packages (15 with compiled code, 25 MB of source tarballs). Heaviest: ggplot2 6.0 MB, data.table 5.7 MB, Rcpp 1.8 MB.

Depends (2)

R >= 3.5.0abind

Imports (9)

apegraphicsmethodsmvtnormMatrixouch PCMBasestatsmatrixcalc

LinkingTo (0)

none

Suggests (6)

PCMBaseCpp ggplot2 knitr rmarkdown mvMORPH testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

1direct

0indirect

Imports 1

Suggested by 2

Depends, Imports or LinkingTo, most downloaded first

pcmabc

Suggests, most downloaded first

PCMBase GLSME

How these are counted

Code & Tests

People & History

People (4)

Krzysztof Bartoszek

Maintainer since 1.0 (2013), Author

John Clarke

Contributor · added in 2.7

Jesualdo Fuentes-Gonzalez

Contributor · added in 2.6.2

Jason Pienaar

Contributor · added in 2.6.2

Releases (43)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
R
R 4.5.0 released · 2025-04-11
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R 4.4.0 released · 2024-04-24
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R 4.3.0 released · 2023-04-21
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R 4.2.0 released · 2022-04-22
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R 4.1.0 released · 2021-05-18
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R 4.0.0 released · 2020-04-24
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R 3.6.0 released · 2019-04-26
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R 3.5.0 released · 2018-04-23
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R 3.4.0 released · 2017-04-21
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R 3.3.0 released · 2016-05-03
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R 3.2.0 released · 2015-04-16
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R 3.1.0 released · 2014-04-10
3.0.3Latest
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2013-12-26 · current release · diff ↗
2.7.7
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2025-07-24 · diff ↗
2.7.6
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2023-11-20 · diff ↗

Show 41 earlier eventsHide 41 earlier events

2.7.5
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2022-08-17 · diff ↗
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2.7
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2021-11-05 · diff ↗ ·
added 3 exports
OU_RSS, OU_xVz, OU_phylreg
2.6.5
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2020-02-06 · diff ↗ ·
removed 1 export
pattern:.

added 17 exports
BrownianMotionModel, drawPhylProcess, estimate.evolutionary.model, fitch.mvsl, generate.model.setups, mvslouchModel, ouchModel, parametric.bootstrap, phyltree_paths, plot.clustered_phylo, simulate_clustered_phylogeny, simulBMProcPhylTree, simulMVSLOUCHProcPhylTree, simulOUCHProcPhylTree, SummarizeBM, SummarizeMVSLOUCH, SummarizeOUCH
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2014-05-30 · diff ↗
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2013-12-27 · diff ↗
1.0
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2013-10-11
R
R 3.0.0 released · 2013-04-03

Package metadata

First published: 2013-10-11
Total releases: 43 / 13 yrs
License: GPL (>= 2) | file LICENCE OSI
Minimum R: ≥ 3.5.0
Download size: 2.9 MB

Cite

Cite this package

Run in R for the authors' entry:

citation("mvSLOUCH")

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

It points to 10.1016/j.jtbi.2012.08.005, 10.1093/sysbio/syac079.

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 mvSLOUCH version 2.7.7 [Data set]. HJJB, LLC. Data release v2026-10-21. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-21, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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