R Observatory: Metrics for phylolm version 2.6.5

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

phylolm

2.6.5Package record

Phylogenetic Linear Regression

11packages dependsuggested by 9

164.5Kdownloads / year

25.2%test coverage

13/13flavors OK

Overview

About

Maintained by Lam Si Tung HoCRAN page ↗GitHub ↗Issues ↗

Provides functions for fitting phylogenetic linear models and phylogenetic generalized linear models. The computation uses an algorithm that is linear in the number of tips in the tree. The package also provides functions for simulating continuous or binary traits along the tree. Other tools include functions to test the adequacy of a population tree.

Install

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

install.packages("phylolm", 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("lamho86/phylolm")

Development version from lamho86/phylolm. 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-phylolm

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-phylolm

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-phylolm

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: 2.7 min · r-devel-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 2.6.5

READMEYes · 245 wordsVignettesNoNEWSNoCitation fileYes · cites a publicationWebsitenot declared in DESCRIPTION

Help pages: 24includes a package overview page
Examples that run: 100%16 run in a plain check
Exported functions with examples: 84%
Documented parameters: not tracked
Return-value docs: not tracked
Help pages citing references: 54%

How these are measured

Downloads

164.5K

CRAN downloads in the past year

Rank #984 · ~451/day · ~13.7K/mo

Releases R versions

Daily download trend is not available in this view yet.

11.7K30 days

40.8K90 days

164.5K1 year

Compare downloads with other packages →

Also on2.2K r2u156 autocran2.9K conda_forge180 c2d4u

How downloads are counted

Repository

lamho86/phylolm ↗Account: lamho86

36Stars

14Forks

8Open issues

0Open PRs

0Releases

193Commits

18Commit identities

License file reads as GPL-2.0 · 193 commits · Last activity 2026-03-05 · +2.9% stars, 30d · Default branch at 2.7.0, ahead of CRAN 2.6.5 (checked 2026-10-25)

Responsiveness

How these are sampled

PRs merged (all time): 97%
Median days to close, 50 most recently updated closed issues: 72
Median days to close, 50 most recently updated closed PRs: 1

Stars over time

2025-06-12 · 352026-10-15 · 36

How these are measured

PracticesBeta

1 development-tooling and community-health practice detected across 1 family in the upstream repository

Checks run against github.com/lamho86/phylolm on 2026-10-25.

Reproducibility and dev environment (1)

data-raw/

How this is detected·Detection ruleset v4 (2026-10-20)

Dependencies

Declared dependencies

3 external dependencies (excludes base and recommended)

Installing phylolm adds 8 packages (4 with compiled code, 4.4 MB of source tarballs). Heaviest: Rcpp 1.8 MB, ape 1.4 MB, future 477 KB.

Depends (2)

R >= 3.0ape

Imports (1)

future.apply

LinkingTo (0)

none

Suggests (2)

testthatnlme

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

11direct

4indirect

Depends 1 · Imports 10

Suggested by 9

Show all 20 packagesHide all 20 packages

Depends, Imports or LinkingTo, most downloaded first

rr2 dispRity OUwie phylopath Rphylopars ratematrix ShiVa invasible cauphy phylolm.hp POMS

Suggests, most downloaded first

insight marginaleffects DHARMa phyr fuzzySim RRphylo bifrost pigauto phylosem

How these are counted

Code & Tests

Datasets

People & History

People (10)

Lam Si Tung Ho

Author, Maintainer since 1.0 (2012)

Cecile Ane

Author

Paul Bastide

Contributor · added in 2.6.5

Rachel Feldman

Contributor · added in 2.3

Robert Lachlan

Contributor · added in 2.1

Joan Maspons

Contributor · added in 2.6.2

Kelsey Tarpinian

Contributor · added in 2.2

Rutger Vos

Contributor · added in 2.6.2

Qing Yu

Contributor · added in 2.5

Wouter van der Bijl

Contributor · added in 2.6

Releases (10)

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
2.6.5Latest
record
2024-09-30 · current release · diff ↗
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
2.6.2
record
2020-06-22 · diff ↗
R
R 4.0.0 released · 2020-04-24
R
R 3.6.0 released · 2019-04-26
2.6
record
2018-05-31 · diff ↗
R
R 3.5.0 released · 2018-04-23
R
R 3.4.0 released · 2017-04-21
2.5
record
2016-10-17 · diff ↗
R
R 3.3.0 released · 2016-05-03
2.4
record
2016-01-09 · diff ↗

Show 9 earlier eventsHide 9 earlier events

2.3
record
2015-09-11 · diff ↗
R
R 3.2.0 released · 2015-04-16
2.2
record
2014-11-18 · diff ↗
2.1
record
2014-06-05 · diff ↗
R
R 3.1.0 released · 2014-04-10
2.0
record
2013-08-13 · diff ↗
R
R 3.0.0 released · 2013-04-03
1.0
record
2013-01-08
R
R 2.15.0 released · 2012-03-30

Package metadata

First published: 2013-01-08
Total releases: 10 / 13 yrs
License: GPL (>= 2) | file LICENSE OSI
Minimum R: ≥ 3.0
Bundled data: 199 KB / 4 files
Download size: 263 KB

Appears in task views

Phylogenetics

Cite

Cite this package

Run in R for the authors' entry:

citation("phylolm")

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

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 phylolm version 2.6.5 [Data set]. HJJB, LLC. Data release v2026-10-26. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-26, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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