R Observatory: Metrics for pmc version 1.0.6

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

pmc

1.0.6Package record

Phylogenetic Monte Carlo

0packages depend

3.7Kdownloads / year

94.0%test coverage

13/13flavors OK

Overview

About

Maintained by Carl BoettigerCRAN page ↗GitHub ↗Issues ↗

Monte Carlo based model choice for applied phylogenetics of continuous traits. Method described in Carl Boettiger, Graham Coop, Peter Ralph (2012) Is your phylogeny informative? Measuring the power of comparative methods, Evolution 66 (7) 2240-51. doi:10.1111/j.1558-5646.2011.01574.x.

Changes in 1.0.6

Roxygen update

From NEWS.md in the release

Install

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

install.packages("pmc", 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("cboettig/pmc")

Development version from cboettig/pmc. 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-pmc

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-pmc

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-pmc

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: 5.5 min · r-release-macos-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK13 OK2026-06-09
ERROR12 OK, 1 ERROR2026-06-08
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.0.6

READMEYes · 134 wordsVignettesYes · 1 · staticNEWSYes · 33% structured · mentions 1.0.6Citation fileYes · cites a publicationWebsitenot declared in DESCRIPTION

Help pages: 7 (1 internal)includes a package overview page
Examples that run: 100%1 run in a plain check
Exported functions with examples: 50%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 0%

Vignettes (1)

PMC Vignette HTML

How these are measured

Downloads

3.7K

CRAN downloads in the past year

Rank #10,562 · ~10/day · ~307/mo

Releases R versions

Daily download trend is not available in this view yet.

47330 days

96990 days

3.7K1 year

Compare downloads with other packages →

Also on59 r2u2 autocran125 c2d4u

How downloads are counted

Repository

cboettig/pmc ↗Account: cboettig

2Stars

1Forks

3Open issues

0Open PRs

1Releases

65Commits

5Commit identities

65 commits · Last activity 2023-10-02 · 0% stars, 30d

Responsiveness

How these are sampled

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

Stars over time

2011-05-30 · 22026-07-07 · 2

How these are measured

PracticesBeta

9 development-tooling and community-health practices detected across 6 families in the upstream repository

Checks run against github.com/cboettig/pmc on 2026-10-18.

Continuous integration (3)

GitHub ActionsR CMD check workflowTravis CI (config file)

The R CMD check workflow runs on Linux, macOS and Windows, and on R-devel

Governance and community (1)

Contributing guide

Docs source (1)

README.Rmd

CRAN release process (2)

cran-comments.mdCRAN-SUBMISSION

Show all practicesHide 2 practices

Research and citation (1)

codemeta.json

Lint, format, editor (1)

RStudio project

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

Dependencies

Declared dependencies

11 external dependencies (excludes base and recommended)

Installing pmc adds 57 packages (32 with compiled code, 57 MB of source tarballs). Heaviest: stringi 11 MB, ncbit 9.4 MB, ggplot2 6.0 MB.

Depends (0)

none

Imports (7)

dplyr geiger ggplot2parallelouch tidyr phytools

LinkingTo (0)

none

Suggests (5)

covr gridExtra knitr testthat rmarkdown

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

Datasets

People & History

People (1)

Carl Boettiger

Author, Maintainer since 0.0-4 (2012)

Releases (11)

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
1.0.6Latest
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2023-10-03 · current release · diff ↗
R
R 4.3.0 released · 2023-04-21
1.0.5
record
2023-04-15 · diff ↗
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
1.0.4
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2021-01-07 · diff ↗
R
R 4.0.0 released · 2020-04-24
R
R 3.6.0 released · 2019-04-26
1.0.3
record
2018-05-17 · diff ↗
R
R 3.5.0 released · 2018-04-23
R
R 3.4.0 released · 2017-04-21
1.0.2
record
2016-12-05 · diff ↗
R
R 3.3.0 released · 2016-05-03

Show 12 earlier eventsHide 12 earlier events

1.0.1
record
2015-09-14 · diff ↗
1.0.0
record
2015-06-26 · diff ↗ ·
removed 7 exports
convert, format_data, mrcaOUCH, paintBranches, plot_pars, treepalette, treepower
R
R 3.2.0 released · 2015-04-16
R
R 3.1.0 released · 2014-04-10
archivedRemoved from CRAN
2013-04-30
the request of the maintainer
R
R 3.0.0 released · 2013-04-03
0.0-8
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2013-03-04 · diff ↗
0.0-7
record
2012-06-20 · diff ↗
R
R 2.15.0 released · 2012-03-30
0.0-5
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2012-03-01 · diff ↗
0.0-4
record
2012-01-22
R
R 2.14.0 released · 2011-10-31

Package metadata

First published: 2012-01-22
Total releases: 11 / 14 yrs
License: CC0 · relicensed from BSD in 0.0-5
Bundled data: 1.9 KB / 1 file
Download size: 167 KB

Appears in task views

Phylogenetics

Cite

Cite this package

Run in R for the authors' entry:

citation("pmc")

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

It points to 10.1111/j.1558-5646.2011.01574.x.

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 pmc version 1.0.6 [Data set]. HJJB, LLC. Data release v2026-10-20. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-20, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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