phenology

2026.2.28

Tools to Manage a Parametric Function that Describes Phenology and More

0packages depend

4.6Kdownloads / year

–test coverage

9/13checks pass

Overview

About

Maintained by Marc GirondotFirst published 2012-04-0644 releasesCRAN page ↗

Functions used to fit and test the phenology of species based on counts. Based on Girondot, M. (2010) doi:10.3354/esr00292 for the phenology function, Girondot, M. (2017) doi:10.1016/j.ecolind.2017.05.063 for the convolution of negative binomial, Girondot, M. and Rizzo, A. (2015) doi:10.2993/etbi-35-02-337-353.1 for Bayesian estimate, Pfaller JB, ..., Girondot M (2019) doi:10.1007/s00227-019-3545-x for tag-loss estimate, Hancock J, ..., Girondot M (2019) doi:10.1016/j.ecolmodel.2019.04.013 for nesting history, Laloe J-O, ..., Girondot M, Hays GC (2020) doi:10.1007/s00227-020-03686-x for aggregating several seasons.

Install

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

install.packages("phenology", 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-phenology

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

# 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-phenology

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-phenology

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed).

Health

CRAN checks

4NOTE9OK

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-gcc
NOTE r-devel-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

NOTE2026-07-16
11 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMENoVignettesNopkgdown siteNoNEWSYes · 33% structuredCode of conductNoContributing guideNo

Examples that run: 26%
Documented parameters: 91%
Return-value docs: 100%
References docs: 12%

Downloads

4.6K

CRAN downloads in the past year

Rank #10,487 · ~13/day · ~384/mo

Releases R versions

Daily download trend is not available in this view yet.

22830 days

1K90 days

4.6K1 year

Compare downloads with other packages →

Also on153 r2u27 autocran

Dependencies

Declared dependencies

11 external dependencies (excludes base and recommended)

Depends (5)

R >= 4.1numDerivparalleloptimx HelpersMG

Imports (0)

none

LinkingTo (0)

none

Suggests (8)

shiny fields progress car MultiRNG nlWaldTest pbapply cranlogs

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Code Composition

R 16,034 (63%)Rd 9,261 (37%)

Code characteristics

Object systems

S320

Cyclomatic complexity: 9.0 median / 87 max

Test coverage

Line coverage

–

Expression

–

Tests / Examples

–

Functions

85 55 exported

Complexity

18.2 avg / 87 max

Call network

85 nodes / 25 edges

Call graph

Open call graph →

Loading call graph…

Lowest coverage

Per-function coverage is not measured for this package yet.

Datasets

Bundled datasets · 3

Name	Class	Rows × Cols	Also ships in
Gratiot	data.frame	365 × 2	–
MarineTurtles_2002	data.frame	2,389 × 2	–
outLR	data.frame	9,809 × 4	–

People & History

People (1)

Maintainer (1)

Marc Girondot

Author, Maintainer

Authors (1)

Marc Girondot

Author, Maintainer

Package Timeline

44 releases. Pick two to compare their code metrics. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
2026.2.28Latest
2026-02-28 · current release · diff ↗
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R 4.5.0 released · 2025-04-11
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R 4.4.0 released · 2024-04-24
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R 4.3.0 released · 2023-04-21
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R 4.2.0 released · 2022-04-22
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R 4.1.0 released · 2021-05-18
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2020-10-22 · diff ↗
R
R 4.0.0 released · 2020-04-24

Show 44 earlier events

R
R 3.6.0 released · 2019-04-26
7.3
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7.1
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R 3.5.0 released · 2018-04-23
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6.0.3
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6.0
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R 3.4.0 released · 2017-04-21
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R 3.3.0 released · 2016-05-03
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R 3.2.0 released · 2015-04-16
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archivedRemoved from CRAN
2015-03-20
not updated for changes to 'coda'
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R 3.1.0 released · 2014-04-10
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R
R 3.0.0 released · 2013-04-03
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3.25
2012-04-06
R
R 2.15.0 released · 2012-03-30

Package metadata

First published: 2012-04-06
Total releases: 44 / 14 yrs
License: GPL-2 OSI
Minimum R: ≥ 4.1
Bundled data: 86 KB / 9 files
Download size: 599 KB
Installed size: not tracked yet
With dependencies: not tracked yet

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