RPesto

0.1.4

Phylogenetic Estimation of Shifts in the Tempo of Origination

0packages depend

1.4Kdownloads / year

–test coverage

3/13checks pass

Overview

About

Maintained by Bjørn Tore KopperudFirst published 2025-11-261 releasesCRAN page ↗

Implements diversification analyses using the phylogenetic birth-death-shift model. It leverages belief propagation techniques to calculate branch-specific diversification rates, see Kopperud & Hoehna (2025) doi:10.1093/sysbio/syaf041.

Install

R (CRAN)Ubuntu (r2u)

install.packages("RPesto", 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-rpesto

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled.

bspm (used by r2u) also needs make: sudo apt install make

Health

CRAN checks

10NOTE3OK

Failing flavors

NOTE r-devel-linux-x86_64-debian-clang
NOTE r-devel-linux-x86_64-debian-gcc
NOTE r-devel-linux-x86_64-fedora-clang
NOTE r-devel-linux-x86_64-fedora-gcc
NOTE r-devel-windows-x86_64
NOTE r-patched-linux-x86_64
NOTE r-release-linux-x86_64
NOTE r-release-macos-arm64
NOTE r-release-macos-x86_64
NOTE r-release-windows-x86_64

Slowest check: 4.9 min · r-devel-linux-x86_64-fedora-clang

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

Dependencies · direct

Check history

NOTE2026-06-09
3 OK · 10 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-08
3 OK · 9 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
NOTE2026-05-10
3 OK · 10 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-05-03
3 OK · 9 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
NOTE2026-03-10
12 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMENoVignettesNopkgdown siteNoNEWSYes · 33% structuredCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 100%
Return-value docs: 50%
References docs: 0%

Downloads

1.4K

CRAN downloads in the past year

Rank #19,239 · ~4/day · ~118/mo

Releases R versions

Daily download trend is not available in this view yet.

18630 days

60190 days

1.4K1 year

Compare downloads with other packages →

Also on248 r2u

Dependencies

Declared dependencies

3 external dependencies (excludes base and recommended)

Depends (1)

R >= 4.2

Imports (3)

tidytree treeio ape

LinkingTo (0)

none

Suggests (0)

none

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

People & History

People (2)

Maintainer (1)

Bjørn Tore Kopperud

Author, Maintainer

Authors (2)

Bjørn Tore Kopperud

Author, Maintainer

Sebastian Höhna

Author

Listed in earlier versions (2)

Sebastian H\u00F6hna

no longer listed · 0.1.4

Bj\u00F8rn Tore Kopperud

no longer listed · 0.1.4

Package Timeline

1 release. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
0.1.4Latest
2026-03-10 · current release
R
R 4.5.0 released · 2025-04-11

Package metadata

First published: 2025-11-26
Total releases: 1 / 1 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 4.2
Bundled data: 7.3 KB / 1 file
Download size: 1.9 MB
Installed size: not tracked yet
With dependencies: not tracked yet

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