R Observatory: Metrics for MPSEM version 0.6-1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

MPSEM

0.6-1Package record

Modelling Phylogenetic Signals using Eigenvector Maps

1packages depend

7.5Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Guillaume GuénardCRAN page ↗

Computational tools to represent phylogenetic signals using adapted eigenvector maps.

Install

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

install.packages("MPSEM", 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-mpsem

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-MPSEM

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-MPSEM

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: 2.3 min · r-devel-windows-x86_64

Status changes

OK13 OK2026-09-08
ERROR12 OK, 1 ERROR2026-09-07
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 0.6-1

READMEYes · 203 wordsVignettesYes · 1 · dynamicNEWSNoCitation fileYes · cites a publicationWebsitenot declared in DESCRIPTION

Help pages: 8includes a package overview page
Examples that run: 100%5 run in a plain check
Exported functions with examples: 80%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 100%

Vignettes (1)

A phylogenetic modelling tutorial using Phylogenetic Eigenvector Maps (PEM) as implemented in R package MPSEM (0.6-1)

How these are measured

Downloads

7.5K

CRAN downloads in the past year

Rank #5,747 · ~21/day · ~624/mo

Releases R versions

Daily download trend is not available in this view yet.

54630 days

1.4K90 days

7.5K1 year

Compare downloads with other packages →

Also on355 r2u5 autocran145 c2d4u

How downloads are counted

Dependencies

Declared dependencies

5 external dependencies (excludes base and recommended)

Installing MPSEM adds 4 packages (4 with compiled code, 3.7 MB of source tarballs). Heaviest: Rcpp 1.8 MB, ape 1.4 MB, magrittr 275 KB.

Depends (3)

R >= 3.0.0ape magrittr

Imports (1)

MASS

LinkingTo (0)

none

Suggests (3)

knitr caper xfun

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

1direct

0indirect

Imports 1

Depends, Imports or LinkingTo, most downloaded first

tapnet

How these are counted

Code & Tests

People & History

People (2)

Guillaume Guénard

Author, Maintainer · added in 0.4-4

Pierre Legendre

Contributor · added in 0.4-4

Maintainer since 0.1-2 (2013)

Listed in earlier versions (2)

Guillaume Guenard

no longer listed · 3.0.2 to 0.4-1

with contribution from Pierre Legendre

no longer listed · 3.0.2 to 0.4-1

Releases (16)

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
R
R 4.4.0 released · 2024-04-24
R
R 4.3.0 released · 2023-04-21
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
R
R 4.0.0 released · 2020-04-24
R
R 3.6.0 released · 2019-04-26
R
R 3.5.0 released · 2018-04-23
R
R 3.4.0 released · 2017-04-21
R
R 3.3.0 released · 2016-05-03
R
R 3.2.0 released · 2015-04-16
R
R 3.1.0 released · 2014-04-10
3.0.3Latest
record
2014-01-15 · current release · diff ↗
3.0.2
record
2013-08-29 · diff ↗ ·
added 1 export
pattern:.
0.6-1
record
2025-05-25 · diff ↗

Show 14 earlier eventsHide 14 earlier events

0.5-1
record
2024-10-23 · diff ↗ ·
removed 1 export
PEMInfluence

added 2 exports
InflMat, dstGraph
0.4-4
record
2024-09-05 · diff ↗
0.4-1
record
2022-01-13 · diff ↗ ·
removed 1 export
pattern:^[^\\.]

added 23 exports
EvolveOptimMarkovTree, Locations2PEMscores, OUvar, PEM.build, PEM.fitSimple, PEM.forcedSimple, PEM.updater, PEMInfluence, PEMvar, PEMweights, Phylo2DirectedGraph, TraitOUsimTree, TraitVarGraphSim, add.edge, add.vertex, collapse.vertex, getAncGraphLocations, getGraphLocations, lmforwardsequentialAICc, lmforwardsequentialsidak, pop.graph, rm.edge, rm.vertex
0.3-6
record
2019-06-03 · diff ↗
0.3-4
record
2018-05-16 · diff ↗
0.3-3
record
2017-09-25 · diff ↗
0.3-2
record
2017-08-22 · diff ↗
0.3-1
record
2015-12-17 · diff ↗ ·
removed 1 export
pattern:.

added 1 export
pattern:^[^\\.]
0.2-6
record
2014-12-02 · diff ↗
0.2-5
record
2014-06-20 · diff ↗
0.2-3
record
2014-03-19 · diff ↗
0.2-1
record
2014-01-15 · diff ↗
0.1-2
record
2013-09-03
R
R 3.0.0 released · 2013-04-03

Package metadata

First published: 2013-08-29
Total releases: 16 / 13 yrs
License: GPL-3 OSI
Minimum R: ≥ 3.0.0
Download size: 167 KB

Appears in task views

Phylogenetics

Cite

Cite this package

Run in R for the authors' entry:

citation("MPSEM")

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

It points to 10.1111/2041-210x.12111.

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 MPSEM version 0.6-1 [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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