R Observatory: Metrics for MorphSim version 1.2.1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

MorphSim

1.2.1Package record

Simulate Discrete Character Data along Phylogenetic Trees

0packages depend

1.7Kdownloads / year

46.0%test coverage

13/13flavors OK

Overview

About

Maintained by Laura MulveyCRAN page ↗

Tools to simulate morphological traits along phylogenetic trees with branch lengths representing evolutionary distance or time. Includes functions for visualizing evolutionary processes along trees and within morphological character matrices. Methods are described in Mulvey et al. (2026) doi:10.1111/2041-210X.70326.

Install

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

install.packages("MorphSim", 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-morphsim

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-MorphSim

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-MorphSim

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-oldrel-windows-x86_64

Status changes

OK13 OKNow
OK5 OK2026-09-22
NOTE11 OK, 2 NOTE2026-07-16
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 1.2.1

READMEYes · 991 wordsVignettesYes · 1 · dynamicNEWSNoCitation fileYes · cites a publicationWebsitenot declared in DESCRIPTION

Help pages: 25
Examples that run: 100%20 run in a plain check
Exported functions with examples: 100%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 4%

Vignettes (1)

Introduction to MorphSim HTML

How these are measured

Downloads

1.7K

CRAN downloads in the past year

Rank #24,193 · ~5/day · ~144/mo

Releases R versions

Daily download trend is not available in this view yet.

25030 days

52190 days

1.7K1 year

Compare downloads with other packages →

Also on61 r2u1 autocran

How downloads are counted

Dependencies

Declared dependencies

7 external dependencies (excludes base and recommended)

Installing MorphSim adds 33 packages (22 with compiled code, 31 MB of source tarballs). Heaviest: stringi 11 MB, igraph 4.8 MB, phangorn 1.9 MB.

Depends (1)

R >= 3.5

Imports (5)

ape FossilSimstatsgraphicsphangorn

LinkingTo (0)

none

Suggests (4)

TreeSim testthat knitr 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 (5)

Laura Mulvey

Joelle Barido-Sottani

Author, Copyright holder

Tim Brandler

Author, Copyright holder

Alessio Capobianco

Author, Copyright holder

Rachel Warnock

Author, Copyright holder

Releases (3)

Pick two releases to compare their code metrics.

unarchivedReturned to CRAN
2026-09-22
1.2.1Latest
record
2026-09-22 · current release · diff ↗
archivedRemoved from CRAN
2026-09-06
issues were not corrected despite reminders
1.2.0
record
2026-05-06 · diff ↗ ·
removed 1 export
find_path_to_tip

added 4 exports
get.convergent, get.matrix, get.transitions, write.morpho
R
R 4.6.0 released · 2026-04-24
0.1.0
record
2026-01-12
R
R 4.5.0 released · 2025-04-11

Package metadata

First published: 2026-01-12
Total releases: 3 / 1 yrs
License: GPL-3 OSI
Minimum R: ≥ 3.5
Bundled data: 2.1 KB / 1 file
Download size: 180 KB

Appears in task views

Phylogenetics

Cite

Cite this package

Run in R for the authors' entry:

citation("MorphSim")

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

It points to 10.1111/2041-210x.70326.

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 MorphSim version 1.2.1 [Data set]. HJJB, LLC. Data release v2026-10-25. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-25, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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